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<channel>
	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/31156?offset=1400</link>
	<atom:link href="https://bioinformaticsonline.com/related/31156?offset=1400" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	
<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/25993/hoffman-lab</guid>
  <pubDate>Tue, 12 Jan 2016 02:47:41 -0600</pubDate>
  <link></link>
  <title><![CDATA[Hoffman Lab]]></title>
  <description><![CDATA[
<p>They develop machine learning techniques to better understand chromatin biology. These models and algorithms transform high-dimensional functional genomics data into interpretable patterns and lead to new biological insight.</p>

<p>https://www.pmgenomics.ca/hoffmanlab/</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/26335/ra-at-central-university-of-rajasthan</guid>
  <pubDate>Tue, 09 Feb 2016 03:53:35 -0600</pubDate>
  <link></link>
  <title><![CDATA[RA at Central University of Rajasthan]]></title>
  <description><![CDATA[
<p>Research Fellow Bioinformatics</p>

<p>Eligibility : MSc(Bio-Chemistry, Bio-Informatics, Bio-Tech)</p>

<p>Location : Ajmer</p>

<p>Last Date : 13 Feb 2016</p>

<p>Hiring Process : Face to Face Interview<br />Central University of Rajasthan</p>

<p>Research Fellow Job vacancies in Central University of Rajasthan</p>

<p>Project Title : “Development of natural product derived febrifugine ananlogues as a novel therapeutics against visceral leishmaniasis”</p>

<p>No. of Post : 01</p>

<p>Qualification : Master of Biochemistry, Biotechnology, Bioinformatics and related biological sciences with minimum 55%, Age limit as per government rule.</p>

<p>Desirable Experience : Candidates with experience in cell culture, Chemoinformatics, and Parasitology will be preferred.    </p>

<p>Fellowship : Rs. 25,000/- p.m. consolidated for NET qualified (14,000/- p.m. consolidated for Non-NET)<br />How to apply</p>

<p>The candidates may apply on a plain paper, along with their curriculum vitae (including name, date of birth, academic qualification starting from 10th class, summary of research experience, email id, phone number and passport size photograph) and email to vkprajapati@curaj.ac.in or post the hard copy to the Dr. Vijay Kumar Prajapati PI, DST-SERB Project (YSS/2015/000716), Department of Biochemistry, School of Life Sciences, Central University of Rajasthan, Bandarsindri, Dist- Ajmer, Rajasthan, 305 817 on or before 13th February 2016.</p>

<p>More at http://www.curaj.ac.in/Default.aspx?PageId=241</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/26375/ncbi-remap</guid>
	<pubDate>Thu, 11 Feb 2016 11:02:26 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/26375/ncbi-remap</link>
	<title><![CDATA[NCBI Remap]]></title>
	<description><![CDATA[<p><span><span><strong>NCBI Remap</strong>. This tool is conceptually similar to liftOver in that in manages conversions between a pair of genome assemblies but it uses different methods to achieve these mappings. It is also available through a simple <a href="http://www.ncbi.nlm.nih.gov/genome/tools/remap">web interface</a> or you can use the <a href="http://www.ncbi.nlm.nih.gov/genome/tools/remap/docs/api">API for NCBI Remap</a>.</span></span></p>
<p><span><span>More at http://www.ncbi.nlm.nih.gov/genome/tools/remap</span></span></p>
<p><span><span>API http://www.ncbi.nlm.nih.gov/genome/tools/remap/docs/api</span></span></p><p>Address of the bookmark: <a href="http://www.ncbi.nlm.nih.gov/genome/tools/remap" rel="nofollow">http://www.ncbi.nlm.nih.gov/genome/tools/remap</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/26391/radka-reifova-lab</guid>
  <pubDate>Mon, 15 Feb 2016 06:00:48 -0600</pubDate>
  <link></link>
  <title><![CDATA[Radka Reifová Lab]]></title>
  <description><![CDATA[
<p>We are generally interested in the mechanisms of species origin from a molecular and ecological perspective. Particularly, we are interested in the role of sex chromosomes in speciation. Most of our research is done on birds and mammals. Currently, we focus our research on two hybridizing song birds, the Common nightingale (Luscinia megarhynchos) and the Thrush Nightingale (L. luscinia). Combining population genomic and ecological approaches we try to elucidate the genetic architecture of reproductive isolation and understand the role of interspecific competition and song convergence in the evolution of reproductive isolation between the species. </p>

<p>More at http://web.natur.cuni.cz/~radkas/index.php?page=research</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/26539/scikit-learn</guid>
	<pubDate>Mon, 29 Feb 2016 17:39:24 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/26539/scikit-learn</link>
	<title><![CDATA[scikit-learn]]></title>
	<description><![CDATA[<p>Machine Learning in Python</p>
<p>Simple and efficient tools for data mining and data analysis<br> Accessible to everybody, and reusable in various contexts<br> Built on NumPy, SciPy, and matplotlib<br> Open source, commercially usable - BSD license</p>
<p>More at&nbsp;http://scikit-learn.org/stable/index.html</p>
<p>&nbsp;</p><p>Address of the bookmark: <a href="http://scikit-learn.org/stable/auto_examples/index.html" rel="nofollow">http://scikit-learn.org/stable/auto_examples/index.html</a></p>]]></description>
	<dc:creator>Jitendra Prajapati</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/26554/ra-at-north-eastern-hill-university</guid>
  <pubDate>Wed, 02 Mar 2016 08:27:32 -0600</pubDate>
  <link></link>
  <title><![CDATA[RA at North-Eastern Hill University]]></title>
  <description><![CDATA[
<p>North-Eastern Hill University</p>

<p>Umshing, Shillong- 793 022</p>

<p>Applications are invited for the following positions (purely temporary posts) in an UGC-ISF funded Indo-Israel Joint Research Project entitled “Interactions of mRNA export factors and nuclear pores characterized and quantified by biochemistry, biophysics and high-resolution imaging” sanctioned to Dr. Timir Tripathi, Molecular and Structural Biophysics Laboratory, Department of Biochemistry, NEHU, Shillong for 3 years (2016-19).</p>

<p>Details of positions:</p>

<p>1. Research Associate (two): bioinformatics/computational biology (One) and wet-lab biophysics (one).</p>

<p>2. Junior Research Fellow, JRF (One).</p>

<p>3. Project Assistant (One).</p>

<p>Fellowship: As per GOI rules.</p>

<p>Essential Qualifications:</p>

<p>1. Research Associate: Ph.D. in the above-mentioned fields, should be evident through quality publications. Those who have submitted Ph.D. thesis can also apply.</p>

<p>2. Junior Research Fellow: M.Sc. or equivalent in any branch of life sciences with a good academic record. Prior research experience is desirable.</p>

<p>3. Project Assistant: Graduation in any subject.</p>

<p>Must be familiar with working on computer and MS-Office.</p>

<p>Interested students can apply for the positions online using the following link http://goo.gl/forms/FEa802lNGc , latest by 16.03.16. The hard copy of the application is not required. The date of interview will be informed after primary scrutiny of the applications.</p>

<p>No TA/DA will be paid if called for interview. For any other enquiry email at msb.biochem@gmail.com .</p>

<p>For details of the research work of the PI’s group please visit www.ttripathi.webs.com</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/26629/computer-simulation-of-genetic-mechanism</guid>
	<pubDate>Sun, 13 Mar 2016 09:29:56 -0500</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/26629/computer-simulation-of-genetic-mechanism</link>
	<title><![CDATA[Computer simulation of genetic mechanism !!]]></title>
	<description><![CDATA[<p>Computer simulation is the discipline of designing a model of an actual or theoretical physical/biological system, executing the model on a digital computer, and analyzing the execution output. Simulation embodies the principle of ``learning by doing'' --- to learn about the system we must first build a model of some sort and then operate the model. The use of simulation is an activity that is as natural as a child who role plays. Children understand the world around them by simulating (with toys and figurines) most of their interactions with other people, animals and objects. As adults, we lose some of this childlike behavior but recapture it later on through computer simulation. To understand reality and all of its complexity, we must build artificial objects and dynamically act out roles with them. Computer simulation is the electronic equivalent of this type of role playing and it serves to drive synthetic environments and virtual worlds. Within the overall task of simulation, there are three primary sub-fields: model design, model execution and model analysis<br /><br />Simulation models have become important tools in Bioinformatics studies. There are many reasons for this, but we emphasize three of the more important:</p><p>(1) they enable exploration of hypotheses, and as such, have become invaluable means to guide research;</p><p>(2) they are unique approaches to integrate (in the literal term of the word) biological knowledge, in the form of experimental results; and</p><p>(3) they enable connecting biology with other fields of study ranging from physiology to genomics;</p><p>This blog, and this software list, is intended to guide the potential user of simulation models.<br />It is not, in any way, meant to be comprehensive on the very diverse simulation tools that already exist, but focuses on mechanistic, dynamic models. Similarly, it is not meant to provide any coverage of the breadth of applications; however, for interested readers, we provide references to use as a possible starting point.<br /><br />Simulation models are meant to answer questions which scientists have in a dynamic, quantitative, and often, a pictorial way. Much of the bioinformatics research and its applications, in particular, involve a large number of components, actors, and factors. Assembling these in a coherent framework may seem a daunting task, especially for beginners, and can lead to confusion, even for experienced scientists, especially if the objectives of such an exercise are not well defined. Followings are the list of tools bioinformatician may use to analyze and provide answers to complex biological mechanisms and related problems.</p><p style="margin-bottom: 0in;">&nbsp;</p><table width="718" cellspacing="0" cellpadding="2"><colgroup><col width="134"> <col width="501"> </colgroup>
<tbody>
<tr><th style="border: none; padding: 0in;">
<p>Software Resource</p>
</th><th style="border: none; padding: 0in;">
<p>Brief Description and Homepage</p>
</th></tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/aladyn/">Aladyn </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Tools to investigate how demographic parameters, populations genetics and abiotic conditions affect the rate of adaptation <br /><a href="http://www.katja-schiffers.eu/research.html">http://www.katja-schiffers.eu/research.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/alf/">ALF </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A Simulation Framework for Genome Evolution <br /><a href="http://www.cbrg.ethz.ch/alf">http://www.cbrg.ethz.ch/alf</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/art/">ART </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>ART is a set of simulation tools to generate synthetic next-generation sequencing data by mimicking real sequencing process with empirical error models or quality profiles. <br /><a href="http://www.niehs.nih.gov/research/resources/software/biostatistics/art/">http://www.niehs.nih.gov/research/resources/software/biostatistics/art/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/bamsurgeon/">BAMSurgeon </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Methods for realistic simulation of mutations in real data. <br /><a href="https://github.com/adamewing/bamsurgeon">https://github.com/adamewing/bamsurgeon</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/bayesian-serial-simcoal/">Bayesian Serial SimCoal </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Bayesian Serial SimCoal, (BayeSSC) is a modification of SIMCOAL 1.0, a program written by Laurent Excoffier, John Novembre, and Stefan Schneider. <br /><a href="http://www.stanford.edu/group/hadlylab/ssc/index.html">http://www.stanford.edu/group/hadlylab/ssc/index.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/baysics/">BaySICS </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>An integral platform with a graphical interface for statistical inference based on approximate Bayesian computation. <br /><a href="https://sites.google.com/site/baysicsabc/">https://sites.google.com/site/baysicsabc/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/beers/">BEERS </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>BEERS was designed to benchmark RNA-Seq alignment algorithms and also algorithms that aim to reconstruct different isoforms and alternate splicing from RNA-Seq data <br /><a href="http://cbil.upenn.edu/BEERS/">http://cbil.upenn.edu/beers/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/bottleneck/">BOTTLENECK </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Bottleneck is a program for detecting recent effective population size reductions from allele data frequencies <br /><a href="http://www.ensam.inra.fr/URLB/bottleneck/bottleneck.html">http://www.ensam.inra.fr/urlb/bottleneck/bottleneck.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/bottlesim/">BottleSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>BottleSim is a computer simulation program for simulating the process of population bottlenecks <br /><a href="http://chkuo.name/software/BottleSim.html">http://chkuo.name/software/bottlesim.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/cass/">CASS </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Protein Sequence Simulation <br /><a href="https://liberles.cst.temple.edu/Software/CASS/index.html">https://liberles.cst.temple.edu/software/cass/index.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/cdpop/">CDPOP </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>CDPOP is a landscape genetics tool for simulating the emergence of spatial genetic structure in populations resulting from specified landscape processes governing organism movement behavior. <br /><a href="http://cel.dbs.umt.edu/CDPOP">http://cel.dbs.umt.edu/cdpop</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/classical-genetics-simulator/">Classical Genetics Simulator </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Web-based simulation software <br /><a href="http://www.cgslab.com/">http://www.cgslab.com/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/coasim/">CoaSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>CoaSim is a tool for simulating the coalescent process with recombination and geneconversion under various demographic models. <br /><a href="http://users-birc.au.dk/mailund/CoaSim/index.html">http://users-birc.au.dk/mailund/coasim/index.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/cosi/">cosi </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>The cosi package is written in C and is available as a tar file. <br /><a href="http://www.broadinstitute.org/%7Esfs/cosi/">http://www.broadinstitute.org/~sfs/cosi/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/cs-pseq-gen/">CS-PSeq-Gen </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A program to simulate the evolution of protein sequences under the constraints of the information of a particular reconstructed phylogeny <br /><a href="http://bioserv.rpbs.univ-paris-diderot.fr/software/CS-PSeq-Gen/">http://bioserv.rpbs.univ-paris-diderot.fr/software/cs-pseq-gen/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/dawg/">DAWG </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>An application designed to simulate the evolution of recombinant DNA sequences in continuous time <br /><a href="http://scit.us/projects/dawg">http://scit.us/projects/dawg</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/easypop/">Easypop </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>EASYPOP is an individual based model intended to simulate datasets under a very broad range of conditions <br /><a href="http://www.unil.ch/dee/en/home/menuinst/softwares--dataset/softwares/easypop.html">http://www.unil.ch/dee/en/home/menuinst/softwares--dataset/softwares/easypop.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/egglib/">EggLib </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>EggLib is a C++/Python library and program package for evolutionary genetics and genomics. <br /><a href="http://egglib.sourceforge.net/">http://egglib.sourceforge.net/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/episim/">EpiSIM </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>EpiSIM: simulation of multiple epistasis, linkage disequilibrium patterns and haplotype blocks for genome-wide interaction analysis <br /><a href="https://sourceforge.net/projects/episimsimulator/files/">https://sourceforge.net/projects/episimsimulator/files/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/evolsimulator/">EvolSimulator </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A simulation test bed for hypotheses of genome evolution <br /><a href="http://acb.qfab.org/acb/evolsim/">http://acb.qfab.org/acb/evolsim/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/evolveagene/">EvolveAGene </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A realistic coding sequence simulation program that separates mutation from selection and allows the user to set selection conditions <br /><a href="http://bellinghamresearchinstitute.com/software/index.html">http://bellinghamresearchinstitute.com/software/index.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/fastsimcoal/">fastsimcoal </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A continuous-&shy;‐time coalescent simulator of genomic diversity under arbitrarily complex evolutionary scenarios <br /><a href="http://cmpg.unibe.ch/software/fastsimcoal/">http://cmpg.unibe.ch/software/fastsimcoal/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/fastslink/">FastSLINK </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Simulation of Marker and Phenotype Data in Pedigrees <br /><a href="https://watson.hgen.pitt.edu/">https://watson.hgen.pitt.edu/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/ffpopsim/">FFPopSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>C++/Python library for population genetics. <br /><a href="http://webdav.tuebingen.mpg.de/ffpopsim/">http://webdav.tuebingen.mpg.de/ffpopsim/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/flux-simulator/">FLUX SIMULATOR </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>The Flux Simulator aims at providing a deterministic in silico reproduction of the experimental pipelines for RNA-Seq, employing a minimal set of parameters. <br /><a href="http://sammeth.net/confluence/display/SIM/Home">http://sammeth.net/confluence/display/sim/home</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/forqs/">forqs </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Forward-in-time simulation of Recombination, Quantitative Traits, and Selection <br /><a href="https://bitbucket.org/dkessner/forqs">https://bitbucket.org/dkessner/forqs</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/forsim/">ForSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>ForSim: A Forward Evolutionary Computer Simulation <br /><a href="http://anth.la.psu.edu/research/weiss-lab/research/research">http://anth.la.psu.edu/research/weiss-lab/research/research</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/forwsim/">ForwSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>The program given below is based on the algorithm described in Padhukasahasram et al. 2008 to simulate genetic drift in a standard Wright-Fisher process. <br /><a href="http://badri-populationgeneticsimulators.blogspot.com/">http://badri-populationgeneticsimulators.blogspot.com/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/fpg/">FPG </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Forward Population Genetic simulation <br /><a href="https://bio.cst.temple.edu/%7Ehey/software/software.htm#FPG">https://bio.cst.temple.edu/~hey/software/software.htm#fpg</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/fregene/">FREGENE </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>FREGENE is a C++ program that simulates sequence-like data over large genomic regions in large diploid populations. <br /><a href="http://www.ebi.ac.uk/projects/BARGEN">http://www.ebi.ac.uk/projects/bargen</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/frequency-based-insilico-genome-generator-figg/">FIGG </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>FIGG is a genome simulation tool that uses known or theorized variation frequency, per a given fragment size and grouped by GC content across a genome to model new genomes in FASTA format while tracking applied mutations for use in analysis <br /><a href="http://insilicogenome.sourceforge.net/">http://insilicogenome.sourceforge.net/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/fwdpp/">fwdpp </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A C++ template library for implementing efficient forward simulations. <br /><a href="http://molpopgen.github.io/fwdpp/">http://molpopgen.github.io/fwdpp/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/gametes/">GAMETES </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Genetic Architecture Model Emulator for Testing and Evaluating Software: Simulates complex SNP models with pure, strict epistatic interactions with n-loci. <br /><a href="http://sourceforge.net/projects/gametes/?source=navbar">http://sourceforge.net/projects/gametes/?source=navbar</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/gasp/">GASP </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Genometric Analysis Simulation Program. A software tool for testing and investigating methods in statistical genetics by generating samples of family data based on user specified models. <br /><a href="http://research.nhgri.nih.gov/gasp/">http://research.nhgri.nih.gov/gasp/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/gcta/">GCTA </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Genome-wide Complex Trait Analysis <br /><a href="http://www.complextraitgenomics.com/software/gcta/download.html">http://www.complextraitgenomics.com/software/gcta/download.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/gemsim/">GemSIM </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Next generation sequencing read simulator <br /><a href="http://sourceforge.net/projects/gemsim/">http://sourceforge.net/projects/gemsim/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/geneartisan/">GeneArtisan </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Simulation of Markers in Case-Control Study Designs <br /><a href="http://www.rannala.org/?page_id=241">http://www.rannala.org/?page_id=241</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/genome/">GENOME </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A rapid coalescent-based whole genome simulator <br /><a href="http://www.sph.umich.edu/csg/liang/genome/">http://www.sph.umich.edu/csg/liang/genome/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/genomepop2/">GenomePop2 </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>GenomePop2 is a specialization of the program GenomePop just to manage SNPs under more flexible and useful settings. If you need models with more than 2 alleles please use the GenomePop program version. <br /><a href="https://ritchielab.psu.edu/research/research-areas/statistical-genetics-and-gen-epi/methods/genomesimla">https://ritchielab.psu.edu/research/research-areas/statistical-genetics-and-gen-epi/methods/genomesimla</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/genomesimla/">GenomeSimla </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>GenomeSIMLA is currently under development- however, we have a beta release that we are asking to be tested <br /><a href="http://chgr.mc.vanderbilt.edu/genomeSIMLA/">http://chgr.mc.vanderbilt.edu/genomesimla/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/gens2/">GENS2 </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Simulates interactions among two genetic and one environmental factor and also allows for epistatic interactions. <br /><a href="https://sourceforge.net/projects/gensim/">https://sourceforge.net/projects/gensim/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/gwasimulator/">GWAsimulator </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A rapid whole genome simulation program <br /><a href="http://biostat.mc.vanderbilt.edu/wiki/Main/GWAsimulator">http://biostat.mc.vanderbilt.edu/wiki/main/gwasimulator</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/hap-sample/">HAP-SAMPLE </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>An association simulator for candidate regions or genome scans <br /><a href="http://www.hapsample.org/">http://www.hapsample.org/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/hapgen/">HAPGEN </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A simulator for the simulation of case control datasets at SNP markers <br /><a href="https://mathgen.stats.ox.ac.uk/genetics_software/hapgen/hapgen2.html">https://mathgen.stats.ox.ac.uk/genetics_software/hapgen/hapgen2.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/hapsim/">HapSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A simulation tool for generating haplotype data with pre-specified allele frequencies and LD coefficients <br /><a href="http://cran.r-project.org/web/packages/hapsim/index.html">http://cran.r-project.org/web/packages/hapsim/index.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/hapsimu/">HAPSIMU </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A program that simulates heterogeneous populations with various known and controllable structures under the continuous migration model or the discrete model <br /><a href="http://l.web.umkc.edu/liujian/">http://l.web.umkc.edu/liujian/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/ibdsim/">IBDsim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>IBDSim is a computer package for the simulation of genotypic data under general isolation by distance models. <br /><a href="http://raphael.leblois.free.fr/">http://raphael.leblois.free.fr/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/indel-seq-gen/">indel-Seq-Gen </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A biological sequence simulation program that simulates highly divergent DNA sequences and protein superfamilies <br /><a href="http://bioinfolab.unl.edu/%7Ecstrope/iSG/">http://bioinfolab.unl.edu/~cstrope/isg/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/indelible/">Indelible </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A powerful and flexible simulator of biological evolution <br /><a href="http://abacus.gene.ucl.ac.uk/software/indelible/">http://abacus.gene.ucl.ac.uk/software/indelible/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/invertfregene/">invertFREGENE </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>InvertFREGENE is a forward-in-time simulator of inversions in population genetic data <br /><a href="http://www.ebi.ac.uk/projects/BARGEN/">http://www.ebi.ac.uk/projects/bargen/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/kernalpop/">kernalPop </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A spatially explicit population genetic simulation engine <br /><a href="http://cran.r-project.org/src/contrib/Archive/kernelPop/">http://cran.r-project.org/src/contrib/archive/kernelpop/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/macs/">MaCS </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Markovian Coalescent Simulator <br /><a href="http://www-hsc.usc.edu/%7Egarykche/">http://www-hsc.usc.edu/~garykche/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/marlin/">Marlin </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Marlin provides a user-friendly interface for performing forward-in-time population genetic simulations. <br /><a href="http://www.patrickmeirmans.com/software/Marlin.html">http://www.patrickmeirmans.com/software/marlin.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/mason/">Mason </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A package for the simulation of nucleotide data. <br /><a href="http://www.seqan.de/projects/mason/">http://www.seqan.de/projects/mason/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/mbs/">mbs </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>modifying Hudson's ms software to generate samples of DNA sequences with a biallelic site under selection <br /><a href="http://www.sendou.soken.ac.jp/esb/innan/InnanLab/software.html">http://www.sendou.soken.ac.jp/esb/innan/innanlab/software.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/mendels-accountant/">Mendel's Accountant </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Mendel's Accountant (MENDEL) is an advanced numerical simulation program for modeling genetic change over time and was developed collaboratively by Sanford, Baumgardner, Brewer, Gibson and ReMine <br /><a href="http://mendelsaccount.sourceforge.net/">http://mendelsaccount.sourceforge.net/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/metapopgen/">MetaPopGen </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Simulates genetics in large size metapopulations <br /><a href="https://sites.google.com/site/marcoandrello/metapopgen">https://sites.google.com/site/marcoandrello/metapopgen</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/metasim/">MetaSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A tool to generate collections of synthetic reads that reflect the diverse taxonomical composition of typical metagenome data sets <br /><a href="http://ab.inf.uni-tuebingen.de/software/metasim/">http://ab.inf.uni-tuebingen.de/software/metasim/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/mlcoalsim/">mlcoalsim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Multilocus Coalescent Simulations <br /><a href="http://code.google.com/p/mlcoalsim-v1/">http://code.google.com/p/mlcoalsim-v1/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/ms/">ms </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>The purpose of this program is to allow one to investigate the statistical properties of such samples, to evaluate estimators or statistical tests, and generally to aid in the interpretation of polymorphism data sets. <br /><a href="http://home.uchicago.edu/%7Erhudson1/source/mksamples.html">http://home.uchicago.edu/~rhudson1/source/mksamples.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/mshot/">msHOT </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>The purpose of this program is to allow one to investigate the statistical properties of such samples, to evaluate estimators or statistical tests, and generally to aid in the interpretation of polymorphism data sets. <br /><a href="http://home.uchicago.edu/%7Erhudson1/">http://home.uchicago.edu/~rhudson1/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/msms/">msms </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A coalescent Simlation tool with selection. <br /><a href="http://www.mabs.at/ewing/msms/index.shtml">http://www.mabs.at/ewing/msms/index.shtml</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/myssp/">MySSP </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A program for the simulation of DNA sequence evolution across a phylogenetic tree <br /><a href="http://www.rosenberglab.net/software.html">http://www.rosenberglab.net/software.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/nemo/">Nemo </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A forward-time, individual-based, genetically explicit, and stochastic simulation program designed to study the evolution of genetic markers, life history traits, and phenotypic traits in a flexible (meta-)population framework. <br /><a href="http://nemo2.sourceforge.net/">http://nemo2.sourceforge.net/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/netrecodon/">NetRecodon </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Coalescent simulation of coding DNA sequences with recombination (inter and intracodon), migration and demography <br /><a href="http://code.google.com/p/netrecodon/">http://code.google.com/p/netrecodon/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/oncosimulr/">OncoSimulR </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>BioConductor package for Forward Genetic Simulation of Cancer Progresion with Epistasis <br /><a href="https://github.com/rdiaz02/OncoSimul">https://github.com/rdiaz02/oncosimul</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/pedagog/">PEDAGOG </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Software for simulating eco-evolutionary population dynamics <br /><a href="https://bcrc.bio.umass.edu/pedigreesoftware/node/5">https://bcrc.bio.umass.edu/pedigreesoftware/node/5</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/phenosim/">phenosim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A tool to add phenotypes to simulated genotypes <br /><a href="http://evoplant.uni-hohenheim.de/doku.php?id=software:software">http://evoplant.uni-hohenheim.de/doku.php?id=software:software</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/phylosim/">PhyloSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>An R package for the Monte Carlo simulation of sequence evolution <br /><a href="http://www.ebi.ac.uk/goldman-srv/phylosim/">http://www.ebi.ac.uk/goldman-srv/phylosim/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/pirs/">pIRS </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Profile-based Illumina pair-end reads simulator <br /><a href="https://code.google.com/p/pirs/">https://code.google.com/p/pirs/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/proteinevolver/">ProteinEvolver </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Simulation of protein evolution along phylogenies under structure-based substitution models <br /><a href="http://code.google.com/p/proteinevolver/">http://code.google.com/p/proteinevolver/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/qmsim/">QMSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>QTL and Marker Simulator <br /><a href="http://www.aps.uoguelph.ca/%7Emsargol/qmsim/">http://www.aps.uoguelph.ca/~msargol/qmsim/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/quantinemo/">quantiNEMO </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>An individual-based program for the analysis of quantitative traits with explicit genetic architecture potentially under selection in a structured population <br /><a href="http://www2.unil.ch/popgen/softwares/quantinemo/">http://www2.unil.ch/popgen/softwares/quantinemo/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/recoal/">RECOAL </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Simulates new haplotype data from a reference population of haplotypes. <br /><a href="ftp://popgen.usc.edu/">ftp://popgen.usc.edu/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/recodon/">Recodon </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Coalescent simulation of coding DNA sequences with recombination, migration and demography <br /><a href="http://code.google.com/p/recodon/">http://code.google.com/p/recodon/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/rlsim/">rlsim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A package for simulating RNA-seq library preparation with parameter estimation <br /><a href="http://bit.ly/rlsim-git">http://bit.ly/rlsim-git</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/rmetasim/">Rmetasim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Rmetasim is a front-end for the metasim engine that is implemented as a package that runs in the statistical computing environment R <br /><a href="http://cran.r-project.org/web/packages/rmetasim/index.html">http://cran.r-project.org/web/packages/rmetasim/index.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/rna-seq-simulator/">RNA Seq Simulator </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>RSS takes SAM alignment files from RNA-Seq data and simulates over dispersed, multiple replica, differential, non-stranded RNA-Seq datasets. <br /><a href="http://useq.sourceforge.net/cmdLnMenus.html#RNASeqSimulator">http://useq.sourceforge.net/cmdlnmenus.html#rnaseqsimulator</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/rose/">Rose </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Random model of sequence evolution <br /><a href="http://bibiserv.techfak.uni-bielefeld.de/rose/">http://bibiserv.techfak.uni-bielefeld.de/rose/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/scrm/">scrm </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A coalescent simulator optimized for long sequences and large samples. <br /><a href="https://scrm.github.io/">https://scrm.github.io/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/selsim/">SelSim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>SelSim is a program for Monte Carlo simulation of DNA polymorphism data for a recom- bining region within which a single bi-allelic site has experienced natural selection <br /><a href="http://www.well.ox.ac.uk/%7Espencer/SelSim/">http://www.well.ox.ac.uk/~spencer/selsim/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/seq-gen/">Seq-Gen </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>An application for the Monte Carlo simulation of molecular sequence evolution along phylogenetic trees. <br /><a href="http://tree.bio.ed.ac.uk/software/seqgen/">http://tree.bio.ed.ac.uk/software/seqgen/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/seqpower/">SEQPower </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Statistical power analysis for sequence-based association studies <br /><a href="http://bioinformatics.org/spower/">http://bioinformatics.org/spower/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/seqsimla/">SeqSIMLA </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>SeqSIMLA can simulate sequence data with user-specified disease and quantitative trait models. Family or unrelated case-control data can be simulated. <br /><a href="http://seqsimla.sourceforge.net/">http://seqsimla.sourceforge.net/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/serial-netevolve/">Serial NetEvolve </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A flexible utility for generating serially-sampled sequences along a tree or recombinant network <br /><a href="http://biorg.cis.fiu.edu/SNE/">http://biorg.cis.fiu.edu/sne/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/sfs_code/">SFS_CODE </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>SFS_CODE can perform forward population genetic simulations under a general Wright-Fisher model with arbitrary migration, demographic, selective, and mutational effects. <br /><a href="http://sfscode.sourceforge.net/SFS_CODE/index/index.html">http://sfscode.sourceforge.net/sfs_code/index/index.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/sibsim/">SIBSIM </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Quantitative phenotype simulation in extended pedigrees <br /><a href="http://sourceforge.net/projects/sibsim/">http://sourceforge.net/projects/sibsim/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/simadapt/">SimAdapt </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A spatially explicit, individual-based, forward-time, landscape-genetic simulation model combined with a landscape cellular automaton. <br /><a href="https://www.openabm.org/model/3137">https://www.openabm.org/model/3137</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/simcoal2/">SIMCOAL2 </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A coalescent program for the simulation of complex recombination patterns over large genomic regions under various demographic models <br /><a href="http://cmpg.unibe.ch/software/simcoal2/">http://cmpg.unibe.ch/software/simcoal2/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/simcopy/">SimCopy </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>An R package simulating the evolution of copy number profiles along a tree. <br /><a href="http://bit.ly/simcopy">http://bit.ly/simcopy</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/simla/">SIMLA </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>SIMLA is a SIMuLAtion program that generates data sets of families for use in Linkage and Association studies. <br /><a href="http://dmpi.duke.edu/simla-simulation-software-version-32">http://dmpi.duke.edu/simla-simulation-software-version-32</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/simped/">SimPed </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A Simulation Program to Generate Haplotype and Genotype Data for Pedigree Structures <br /><a href="http://bioinformatics.org/simped/">http://bioinformatics.org/simped/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/simprot/">Simprot </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A program to simulate protein evolution by substitution, insertion and deletion <br /><a href="http://www.uhnresearch.ca/labs/tillier/software.htm#3">http://www.uhnresearch.ca/labs/tillier/software.htm#3</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/simrare/">SimRare </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Rare variant simulation and analysis tool <br /><a href="http://code.google.com/p/simrare/">http://code.google.com/p/simrare/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/simugwas/">simuGWAS </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A forward-time simulator that simulates realistic samples for genome-wide association studies. <br /><a href="http://simupop.sourceforge.net/Cookbook/SimuGWAS">http://simupop.sourceforge.net/cookbook/simugwas</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/simupop/">simuPOP </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>simuPOP is a general-purpose individual-based forward-time population genetics simulation environment. <br /><a href="http://simupop.sourceforge.net/">http://simupop.sourceforge.net/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/sissi/">SISSI </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A software tool to generate data of related sequences along a given phylogeny, taking into account user defined system of neighbourhoods and instantaneous rate matrices. <br /><a href="http://www.cibiv.at/software/sissi/">http://www.cibiv.at/software/sissi/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/smartpop/">SMARTPOP </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Simulating Mating Alliance as a Reproductive Tactic for Populations <br /><a href="http://smartpop.sourceforge.net/">http://smartpop.sourceforge.net/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/snpsim/">SNPsim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Coalescent simulation of hotspot recombination <br /><a href="http://code.google.com/p/phylosoftware/">http://code.google.com/p/phylosoftware/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/spip/">SPIP </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>SPIP simulates the transmission of genes from parents to offspring in a population having demographic structure defined by the user <br /><a href="http://swfsc.noaa.gov/textblock.aspx?Division=FED&amp;id=3434">http://swfsc.noaa.gov/textblock.aspx?division=fed&amp;id=3434</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/splatche/">Splatche </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Spatial and Temporal Coalescences in Heterogeneous Environment <br /><a href="http://www.splatche.com/">http://www.splatche.com/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/srv/">srv </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Simulator of Rare Varaints (srv) is a simulator for the simulation of the introduction and evolution of (rare) genetic variants. <br /><a href="http://simupop.sourceforge.net/Cookbook/SimuRareVariants">http://simupop.sourceforge.net/cookbook/simurarevariants</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/sup/">SUP </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>SLINK/FastSLINK utility program <br /><a href="http://mlemire.freeshell.org/software.html">http://mlemire.freeshell.org/software.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/treesimj/">TreesimJ </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A flexible, forward-time population genetic simulator <br /><a href="http://code.google.com/p/treesimj/">http://code.google.com/p/treesimj/</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/variant-simulation-tools/">Variant Simulation Tools </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>A simulation tool for post-GWAS genetic epidemiological studies using whole-genome or whole-exome next-gen sequencing data, with an emphasis on user-friendliness and reproducibility. <br /><a href="http://varianttools.sourceforge.net/Simulation/HomePage">http://varianttools.sourceforge.net/simulation/homepage</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/vortex/">Vortex </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>VORTEX is an individual-based simulation model for population viability analysis (PVA). <br /><a href="http://www.vortex9.org/vortex.html">http://www.vortex9.org/vortex.html</a></p>
</td>
</tr>
<tr><th style="border: none; padding: 0in;">
<p><a href="https://popmodels.cancercontrol.cancer.gov/gsr/packages/wessim/">Wessim </a></p>
</th>
<td style="border: none; padding: 0in;">
<p>Whole Exome Sequencing SIMulator <br /><a href="http://sak042.github.io/Wessim/">http://sak042.github.io/wessim/</a></p>
</td>
</tr>
</tbody>
</table><p style="margin-bottom: 0in;">&nbsp;</p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/26823/srf-at-nrcpb-new-deslhi</guid>
  <pubDate>Fri, 25 Mar 2016 04:53:11 -0500</pubDate>
  <link></link>
  <title><![CDATA[SRF at NRCPB, New Deslhi]]></title>
  <description><![CDATA[
<p>NRCPB Recruitment 2016 – Walk in for SRF &amp; Young Professional Posts: National Research Centre on Plant Biotechnology (NRCPB) has announced a notification for the recruitment of Senior Research Fellow &amp; Young Professional Scheme vacancies for the project “NPTC Co-ordinating Cell” on temporary &amp; co-terminus basis. Eligible candidates may walk in interview on 29-03-2016 at 10.00 AM. Other details like age limit, educational qualification, selection process &amp; how to apply are given below…</p>

<p>NRCPB Vacancy Details:<br />Total No.of Posts: 02 <br />Name of the Posts:<br />1. Senior Research Fellow: 01 Post<br />2. Young Professional Scheme: 01 Post</p>

<p>Age Limit: Candidates maximum age should be 35 years. Age relaxation 5 years for SC/ ST/ OBC and women candidates as per ICAR rules.</p>

<p>Educational Qualification: Candidates should posses M.Sc/ M.Tech/ M.C.A. in Molecular Biology/ Biotechnology/ Life Sciences/ Allied Sciences/ Agricultural Sciences/ Computer Science/ Bioinformatics with 1st division or 60% marks or equivalent.</p>

<p>Selection Process: Candidates will be selected based on interview.</p>

<p>How to Apply: Eligible candidates may attend the interview along with four copies of biodata, original certificates, attested photocopies of each of the certificates and an attested copy of recent passport size photograph at NRCPB, LBS Building, Pusa Campus, New Delhi- 110012 on 29-03-2016 at 10.00 AM.</p>

<p>Important Dates:<br />Date &amp; Time of Interview: 29-03-2016 at 10.00 AM.<br />Venue: NRCPB, LBS Building, Pusa Campus, New Delhi-110012.</p>

<p>Read more: http://www.nrcpb.res.in/content/walk-interview-srf-and-yp</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/26877/research-fellow-bioinformatics</guid>
  <pubDate>Mon, 04 Apr 2016 05:41:21 -0500</pubDate>
  <link></link>
  <title><![CDATA[Research Fellow Bioinformatics]]></title>
  <description><![CDATA[
<p>Research Fellow Bioinformatics<br />Eligibility : BSc(Bio-Tech), MSc(Bio-Tech)<br />Location : Ludhiana<br />Last Date : 19 Apr 2016<br />Hiring Process : Walk - In<br />Punjab Agricultural University</p>

<p>Research Fellow Bioinformatics job opportunities in Punjab Agricultural University<br />Qualification : B.Sc. with minimum OCPA 5.00/10.00 basis or 50% marks. ii. M.Sc. in Biotechnology/ Molecular Biology/Molecular Genetics/Bioinformatics/Genetics/Plant Breeding/Plant Breeding &amp; Genetics with at least 6.50/10.00 or 65% marks. iii. Ph.D. in the relevant field with minimum OCPA 6.50/10.00 or 65% marks<br />Pay Scale : Rs.24000/-<br />Application Fee : A Bank Draft of Rs. 200/- in favour of Comptroller, Punjab Agricultural University, Ludhiana <br /> <br />How to apply<br />Walk in Interview will be held on 26.09.2016 at 11:30 a.m. in the office of the Director, School of Agricultural Biotechnology. No separate information for interview will be sent. No TA/DA will be paid for attending the interview. Candidate Should apply with detailed bio data to this office latest by 19.04.2016</p>

<p>More at http://web.pau.edu/index.php?_act=manageAllBanner&amp;DO=viewAllBanner</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/26955/jrf-bioinformatics-at-nipgr</guid>
  <pubDate>Thu, 14 Apr 2016 13:12:42 -0500</pubDate>
  <link></link>
  <title><![CDATA[JRF Bioinformatics at NIPGR]]></title>
  <description><![CDATA[
<p>JRF Bioinformatics job position in National Institute of Plant Genome Research (NIPGR)</p>

<p>Title : “Short-Term Research Fellowship”</p>

<p>Qualification : Candidates having M.Sc./M.Tech degree (with minimum of 60% marks overall) or equivalent in Bioinformatics/Biotechnology or any other related field, are eligible to apply. Candidate having prior experience in the area of next-generation sequencing data analysis, bioinformatics, molecular analysis of plant genes, and structural data analysis will be preferred.</p>

<p>No.of Post : 01<br />How to apply</p>

<p>Application should sent to Dr. Gitanjali Yadav, Staff Scientist-IV, National Institute of Plant Genome Research (NIPGR), Aruna Asaf Ali Marg, P.O. Box NO. 10531, New Delhi - 110067 on or before 26th April 2016</p>

<p>More at http://www.nipgr.res.in/careers/vacancies_latest.php#</p>
]]></description>
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