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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/27099?offset=1400</link>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/13226/you-and-your-friend-have-similar-dna</guid>
	<pubDate>Sun, 27 Jul 2014 20:44:05 -0500</pubDate>
	<link>https://bioinformaticsonline.com/news/view/13226/you-and-your-friend-have-similar-dna</link>
	<title><![CDATA[You and your friend have similar DNA !!!]]></title>
	<description><![CDATA[<p>New research out of Massachusetts claims that people often choose friends that are similar to them in genetics and they are more accurate than you might suppose. A study published on PNAS&nbsp;http://www.pnas.org/content/111/Supplement_3/10796.full found that people are apt to pick friends who are genetically similar to themselves - so much so that friends tend to be as alike at the genetic level as a person's fourth cousin.</p><div style="text-align: center;"><img src="http://i.kinja-img.com/gawker-media/image/upload/s--CwLwHa43--/18fbmlokxcmqcjpg.jpg" alt="image" width="300" height="271" style="border: 0px; border: 0px;"></div><p>Scientists with a long-running Framingham Heart Study looked at 1,932 people (examination of about 1.5 million markers of genetic variations), comparing unrelated friends to unrelated strangers. They found that friends shared about 1% of their genes &mdash; a percentage much higher than those shared with strangers.This new findings made it clear that people have more DNA in common with those who are selected as friends than with strangers in the same population.&nbsp;</p><p>The genes that lined up the most were olfactory genes, which deal with smell. The ones that lined up the least were immune system genes. The researchers weren't sure why that happened :/. Olfactory genes might be a straightforward explanation: People who like the same smells tend to be drawn to similar environments, where they meet others with the same tendencies.</p><p>Reference:</p><p>http://www.pnas.org/content/111/Supplement_3/10796.full</p><p>Image : http://i.kinja-img.com</p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40715/mutatrix-a-population-genome-simulator-which-generates-simulated-genomes</guid>
	<pubDate>Tue, 28 Jan 2020 04:06:58 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40715/mutatrix-a-population-genome-simulator-which-generates-simulated-genomes</link>
	<title><![CDATA[mutatrix: a population genome simulator which generates simulated genomes.]]></title>
	<description><![CDATA[<p><span>genome simulation across a population with zeta-distributed allele frequency, snps, insertions, deletions, and multi-nucleotide polymorphisms</span></p>
<p><span>More at&nbsp;<a href="https://github.com/ekg/mutatrix">https://github.com/ekg/mutatrix</a></span></p>
<pre>./mutatrix -S sample -P test/ -p 2 -n 10 reference.fasta</pre><p>Address of the bookmark: <a href="https://github.com/ekg/mutatrix" rel="nofollow">https://github.com/ekg/mutatrix</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/13477/research-associate-at-indian-institute-of-chemical-technology-iict-hyderabad</guid>
  <pubDate>Thu, 07 Aug 2014 01:55:21 -0500</pubDate>
  <link></link>
  <title><![CDATA[Research Associate at Indian Institute of Chemical Technology (IICT), Hyderabad]]></title>
  <description><![CDATA[
<p>Indian Institute of Chemical Technology (IICT), Hyderabad, a constituent of CSIR is a leading research Institute in the area of chemical sciences. The core strength of IICT lies in Organic Chemistry, and it continues to excel in this field for over six decades. The research efforts during these years have resulted in the development of several innovative processes for a variety of products necessary for human welfare such as drugs, agrochemicals, food, organic intermediates, adhesives etc. More than 150 technologies developed by IICT are now in commercial production.</p>

<p>CSIR-IICT is conducting Walk in Interview for the following position on a purely temporary basis for the sponsored project "GENESIS (BSC-0121) at 10.00 AM on 19th August 2014 at IICT, Hyderabad</p>

<p>    Position : Research Associate<br />    No of Post : One<br />    Desired Profile : PhD in computation biology or M.Tech in Computational Biology with three years experience in relevant subject and atleast one research paper in SCI journal</p>

<p>    Experience : Knowledge in vector and vector borne disease, disease modeling, GIS mapping and modeling.<br />    Age : 35 years<br />    Stipend : Rs 22000/- + HRA</p>

<p>Eligible candidate may download the application form from our website http://www.iictindia.org and appear for interview along with the duly filled in application form supported by bio-data and one set of attested photo copies of certificates of educational qualification, age, experience, caste, latest photograph and the cadndidates are required to bring all the original certificates for verification</p>

<p>Walk in Interview : 19.08.14</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36632/tulip-the-uncorrected-long-read-integration-pipeline</guid>
	<pubDate>Tue, 15 May 2018 09:06:37 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36632/tulip-the-uncorrected-long-read-integration-pipeline</link>
	<title><![CDATA[TULIP - The Uncorrected Long read Integration Pipeline]]></title>
	<description><![CDATA[TULIP currently consists of two Perl scripts, tulipseed.perl and tulipbulb.perl. These are very much intended as prototypes, and additional components and/or implementations are likely to follow.

Tulipseed takes as input alignments files of long reads to sparse short seeds, and outputs a graph and scaffold structures.<p>Address of the bookmark: <a href="https://github.com/Generade-nl/TULIP" rel="nofollow">https://github.com/Generade-nl/TULIP</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/14003/jrf-position-in-the-faculty-of-life-sciences-biotechnology-at-sauth-asian-university</guid>
  <pubDate>Wed, 13 Aug 2014 07:16:30 -0500</pubDate>
  <link></link>
  <title><![CDATA[JRF position in the Faculty of Life Sciences &amp; Biotechnology at  Sauth Asian University]]></title>
  <description><![CDATA[
<p>Opening for a Project-JRF position in the Faculty of Life Sciences &amp; Biotechnology</p>

<p>Applications are invited for the post of Junior Research Fellow (JRF) in a DBT funded IYBA project entitled “Generatingaprotein-ncRNA interactome for Dorsal mediated gene regulation and dorso-ventral patterning genes in Drosophila” in the Lab. Of Molecular Biology at the Faculty of Life Sciences and Biotechnology, South Asian University, New Delhi. The project requires extensive use of molecular, genetic and genomic approaches.</p>

<p>POST: Junior Research Fellow (JRF)</p>

<p>NO. OF VACANCIE(S) - (01)</p>

<p>FELLOWSHIP: Rs. 16,000/- plus HRA</p>

<p>PROJECT DURATION: 2014-2016 (Two years)</p>

<p>LAST DATE FOR APPLICATION: Aug 18, 2014.</p>

<p>Eligibility criteria:</p>

<p>M.Sc./M.Tech./ in Biological Sciences/Biotechnology/Bio-Informatics. Candidates with research experience in the field of Drosophila/Yeast genetics will be preferred.</p>

<p>Application Procedure:</p>

<p>A covering letter along with your CV, copy of prior publications (if any) and proof of experience should be e-mailed to lmb_sau@aol.com. Hardcopy of the application should be brought on the day of interview along with other testimonials and marks statements for verification purpose.</p>

<p>IMPORTANT NOTE:</p>

<p>-No TA/DA will be paid for attending the interview.</p>

<p>-SAU may select candidates against the post depending upon qualification and experience of candidates and reserves the right to relax any of the qualifications in case the candidate is found otherwise well qualified by the Selection Committee</p>

<p>-The abovementioned post is temporary and will be initially offered for a period of one year and can be extended, on satisfactory performance. </p>

<p>More at http://www.sau.ac.in/recruitment/vacancy.html</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/43550/basic-structure-of-snakemake-pipeline-run</guid>
	<pubDate>Thu, 14 Oct 2021 07:01:38 -0500</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/43550/basic-structure-of-snakemake-pipeline-run</link>
	<title><![CDATA[Basic Structure of Snakemake Pipeline Run !]]></title>
	<description><![CDATA[<div>/user/snakemake-demo$ ls</div><div>config.json data envs scripts slurm-240702.out Snakefile</div><ul>
<li>data = mock data for the snakefile to use</li>
<li>Snakefile = name of the snakemake &ldquo;formula&rdquo; file
<ul>
<li>Note: The default file that snakemake looks for in the current working directory is the&nbsp;<code>Snakefile</code>. If you would like to override that you can specify it following the&nbsp;<code>-s</code>
<ul>
<li><code>snakemake -s snakefile.py</code></li>
</ul>
</li>
</ul>
</li>
<li>envs = directory for storing the conda environments that the workflow will use.</li>
<li>scripts = directory for storing python scripts called by the snakemake formula.</li>
<li>config.json = json format file with extra parameters for our snakemake file to use.</li>
<li>cluster.json = json format file with specification for running on the HPC</li>
<li>samples.txt = file we will use later relating to the config.json file.</li>
</ul><p><span>Run the snakemake file as a dry run (the example workflow shown above).</span></p><ul>
<li>This will build a DAG of the jobs to be run without actually executing them.</li>
<li><code>snakemake --dry-run</code></li>
</ul><p>User can e<span>xecute rules of interest.</span></p><ul>
<li><code>snakemake --dry-run all</code>&nbsp;VS.&nbsp;<code>snakemake --dry-run call</code>&nbsp;VS.&nbsp;<code>snakemake --dry-run bwa</code></li>
</ul><p><span>Run the snakemake file in order to produce an image of the DAG of jobs to be run.</span></p><ul>
<li><code>snakemake --dag | dot -Tsvg &gt; dag.svg</code>&nbsp;OR&nbsp;<code>snakemake --dag | dot -Tsvg &gt; dag.svg</code></li>
</ul><p>Run the snakemake (this time not as a dry run)</p><ol>
<li><code>snakemake --use-conda</code></li>
</ol>]]></description>
	<dc:creator>Abhi</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/14054/project-fellow-at-institute-of-himalayan-bioresource-technology</guid>
  <pubDate>Fri, 15 Aug 2014 06:50:08 -0500</pubDate>
  <link></link>
  <title><![CDATA[Project Fellow at Institute of Himalayan Bioresource Technology]]></title>
  <description><![CDATA[
<p>Research Associate/ Project FellowDate of posting:14 Aug</p>

<p>Eligibility : MSc, M Phil / Phd, BE/B.Tech<br />Location : Himachal Pradesh-other<br />Job Category : Govt Jobs, Research, Walkin<br />Last Date : 20 Aug 2014</p>

<p>Advertisement No.6/2014</p>

<p>Post : Project Fellow<br />Research Associate/ Project Fellow Jobs opportunity in CSIR-Institute of Himalayan Bioresource Technology<br />M.Sc. in Bioinformatics/Computer Science with 55% marks and (ii) M.Sc. Bioinformatics/ Computational biology/ P.G. Diploma in Bioinformatics/B.Tech. or higher Degree in Bioinformatics with 55% marks</p>

<p>Date of Interview: 29.08.2014.</p>

<p>More at http://www.ihbt.res.in/recruit/AdvtNo6_2014.pdf</p>
]]></description>
</item>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/44591/yamp-yet-another-metagenomic-pipeline</guid>
	<pubDate>Sat, 06 Jul 2024 04:26:00 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/44591/yamp-yet-another-metagenomic-pipeline</link>
	<title><![CDATA[YAMP: Yet Another Metagenomic Pipeline]]></title>
	<description><![CDATA[<p><span>YAMP is constructed on&nbsp;</span><a href="https://www.nextflow.io/docs/latest/index.html">Nextflow</a><span>, a framework based on the dataflow programming model, which allows writing workflows that are highly parallel, easily portable (including on distributed systems), and very flexible and customisable, characteristics which have been inherited by YAMP. New modules can be added easily and the existing ones can be customised -- even though we have already provided default parameters deriving from our own experience.</span></p><p>Address of the bookmark: <a href="https://github.com/alesssia/YAMP" rel="nofollow">https://github.com/alesssia/YAMP</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/videolist/watch/14338/biology-computers-collide-in-high-demand-field-of-bioinformatics</guid>
	<pubDate>Mon, 25 Aug 2014 00:56:10 -0500</pubDate>
	<link>https://bioinformaticsonline.com/videolist/watch/14338/biology-computers-collide-in-high-demand-field-of-bioinformatics</link>
	<title><![CDATA[Biology, Computers Collide in High-Demand Field of Bioinformatics]]></title>
	<description><![CDATA[<iframe width="" height="" src="https://www.youtube-nocookie.com/embed/fk0z7KOTyMo" frameborder="0" allowfullscreen></iframe>Dr. Shivas Amin calls bioinformatics a "collision of biology and computers." Students learn how to use computers and skills in math and biology to analyze genome and proteome projects to prepare for high-demand jobs in the life sciences. Learn more about Amin and hear from student Medina Baitemirova and alumnus Lukas Simon about the fast-growing field of bioinformatics.]]></description>
	
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34246/unicycler-hybrid-assembly-pipeline-for-bacterial-genomes</guid>
	<pubDate>Fri, 10 Nov 2017 03:58:27 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34246/unicycler-hybrid-assembly-pipeline-for-bacterial-genomes</link>
	<title><![CDATA[Unicycler: Hybrid assembly pipeline for bacterial genomes]]></title>
	<description><![CDATA[<p><span>Unicycler is an assembly pipeline for bacterial genomes. It can assemble&nbsp;</span><a href="http://www.illumina.com/">Illumina</a><span>-only read sets where it functions as a&nbsp;</span><a href="http://cab.spbu.ru/software/spades/">SPAdes</a><span>-optimiser. It can also assembly long-read-only sets (</span><a href="http://www.pacb.com/">PacBio</a><span>&nbsp;or&nbsp;</span><a href="https://nanoporetech.com/">Nanopore</a><span>) where it runs a&nbsp;</span><a href="https://github.com/lh3/miniasm">miniasm</a><span>+</span><a href="https://github.com/isovic/racon">Racon</a><span>&nbsp;pipeline. For the best possible assemblies, give it both Illumina reads&nbsp;</span><em>and</em><span>&nbsp;long reads, and it will conduct a hybrid assembly.</span></p><p>Address of the bookmark: <a href="https://github.com/rrwick/Unicycler" rel="nofollow">https://github.com/rrwick/Unicycler</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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