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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/36603?offset=350</link>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/12989/center-for-molecular-dynamics-nepal-cmdn-nepal</guid>
  <pubDate>Wed, 23 Jul 2014 13:54:51 -0500</pubDate>
  <link></link>
  <title><![CDATA[Center for Molecular Dynamics Nepal (CMDN), Nepal]]></title>
  <description><![CDATA[
<p>Center for Molecular Dynamics Nepal (CMDN), established 2007 prides itself as a research driven nongovernmental organization. Unlike other civil society organizations, CMDN is dedicated entirely to promoting research in the country. With its team of energetic and highly motivated experts, CMDN is now recognized as the leading public health and wildlife research organization of the country.</p>

<p>More at http://www.cmdn.org.np/main/index.php</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40221/dash-a-web-application-framework-that-provides-pure-python-abstraction-around-html-css-and-javascript</guid>
	<pubDate>Tue, 05 Nov 2019 06:39:48 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40221/dash-a-web-application-framework-that-provides-pure-python-abstraction-around-html-css-and-javascript</link>
	<title><![CDATA[Dash: a web application framework that provides pure Python abstraction around HTML, CSS, and JavaScript.]]></title>
	<description><![CDATA[<p style="margin-top: 0px; margin-bottom: 0.75rem;">Dash is a web application framework that provides pure Python abstraction around HTML, CSS, and JavaScript.</p>
<p style="margin-top: 0px; margin-bottom: 0.75rem;">Dash Bio is a suite of bioinformatics components that make it simpler to analyze and visualize bioinformatics data and interact with them in a Dash application.</p>
<p style="margin-top: 0px; margin-bottom: 0.75rem;">The source can be found on GitHub at<span>&nbsp;</span><a href="https://github.com/plotly/dash-bio">plotly/dash-bio</a>.</p>
<p style="margin-top: 0px; margin-bottom: 0.75rem;">These docs are using Dash Bio version 0.1.4.</p><p>Address of the bookmark: <a href="https://dash.plot.ly/dash-bio" rel="nofollow">https://dash.plot.ly/dash-bio</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/videolist/watch/13267/the-genome-10k-project</guid>
	<pubDate>Tue, 29 Jul 2014 09:11:04 -0500</pubDate>
	<link>https://bioinformaticsonline.com/videolist/watch/13267/the-genome-10k-project</link>
	<title><![CDATA[The Genome 10K Project]]></title>
	<description><![CDATA[<iframe width="" height="" src="https://www.youtube-nocookie.com/embed/B57xDIGtCT0" frameborder="0" allowfullscreen></iframe>https://genome10k.soe.ucsc.edu

The Genome 10K project aims to assemble a genomic zoo—a collection of DNA sequences representing the genomes of 10,000 vertebrate species, approximately one for every vertebrate genus. The trajectory of cost reduction in DNA sequencing suggests that this project will be feasible within a few years. Capturing the genetic diversity of vertebrate species would create an unprecedented resource for the life sciences and for worldwide conservation efforts.

The growing Genome 10K Community of Scientists (G10KCOS), made up of leading scientists representing major zoos, museums, research centers, and universities around the world, is dedicated to coordinating efforts in tissue specimen collection that will lay the groundwork for a large-scale sequencing and analysis project.]]></description>
	
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41459/jcvipython-utility-libraries-on-genome-assembly-annotation-and-comparative-genomics</guid>
	<pubDate>Tue, 17 Mar 2020 06:19:06 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41459/jcvipython-utility-libraries-on-genome-assembly-annotation-and-comparative-genomics</link>
	<title><![CDATA[JCVI:Python utility libraries on genome assembly, annotation and comparative genomics]]></title>
	<description><![CDATA[<p>Collection of Python libraries to parse bioinformatics files, or perform computation related to assembly, annotation, and comparative genomics.</p>
<p>https://github.com/tanghaibao/jcvi</p>
<p>More at https://github.com/tanghaibao/jcvi/wiki</p><p>Address of the bookmark: <a href="https://github.com/tanghaibao/jcvi" rel="nofollow">https://github.com/tanghaibao/jcvi</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<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>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34567/jobtree-based-python-wrapper-to-run-the-genome-simulation-tool-suite-evolver</guid>
	<pubDate>Fri, 08 Dec 2017 16:26:32 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34567/jobtree-based-python-wrapper-to-run-the-genome-simulation-tool-suite-evolver</link>
	<title><![CDATA[jobTree based python wrapper to run the genome simulation tool suite Evolver]]></title>
	<description><![CDATA[<p><span>evolverSimControl</span><span>&nbsp;(</span><span>eSC</span><span>) can be used to simulate multi-chromosome genome evolution on an arbitrary phylogeny (</span><a href="http://evolution.genetics.washington.edu/phylip/newicktree.html">Newick format</a><span>). In addition to simply running evolver,&nbsp;</span><span>eSC</span><span>&nbsp;also automatically creates statistical summaries of the simulation as it runs including text and image files. Also included are convenience scripts to: check on a running simulation and see detailed status and logging information; extract fasta sequence files from the leaf nodes of a completed simulation; extract pairwise multiple alignment files (</span><a href="http://genome.ucsc.edu/FAQ/FAQformat.html#format5">.maf</a><span>) from leaf and branch nodes from a completed simulation and with the help of&nbsp;</span><a href="https://github.com/dentearl/mafTools/">mafJoin</a><span>, join them together into a single maf covering the entire simulation.</span></p><p>Address of the bookmark: <a href="https://github.com/dentearl/evolverSimControl" rel="nofollow">https://github.com/dentearl/evolverSimControl</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <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>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41487/tinycov-standalone-command-line-utility-written-in-python-to-plot-coverage-from-a-bam-file</guid>
	<pubDate>Mon, 23 Mar 2020 06:22:08 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41487/tinycov-standalone-command-line-utility-written-in-python-to-plot-coverage-from-a-bam-file</link>
	<title><![CDATA[tinycov: standalone command line utility written in python to plot coverage from a BAM file]]></title>
	<description><![CDATA[<p>Tinycov is a small standalone command line utility written in python to plot the coverage of a BAM file quickly. This software was inspired by&nbsp;<a href="https://github.com/matted/genome_coverage_plotter">Matt Edwards' genome coverage plotter</a>.</p>
<p>To install the stable version:&nbsp;<code>pip3 install --user tinycov</code></p>
<p>To install the development version:</p>
<pre><code>git clone https://github.com/cmdoret/tinycov.git
cd tinycov
pip install .</code></pre><p>Address of the bookmark: <a href="https://github.com/cmdoret/tinycov" rel="nofollow">https://github.com/cmdoret/tinycov</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<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>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/37592/benchmarking-perl-module</guid>
	<pubDate>Sat, 25 Aug 2018 11:40:42 -0500</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/37592/benchmarking-perl-module</link>
	<title><![CDATA[Benchmarking Perl Module !]]></title>
	<description><![CDATA[<p>The benchmark module is a great tool to know the time the code takes to run. The output is usually in terms of CPU time. This module provides us with a way to optimize our code. With the advent of petascale computing and other multicore processor it is becoming a neccesity to know about the CPU time taken by our perl program.</p><p>This is the simple way to use the module</p><blockquote><p>Example1:</p><p>use Benchmark;</p><p>$first_time = Benchmark-&gt;new;</p><p>our code&hellip;&hellip;</p><p>$second_time = Benchmark-&gt;new;</p><p>$final_difference = timediff($first_time,$second_time);</p><p>print &ldquo;the code took, timestr($final_difference),&rdquo;\n&rdquo;;</p></blockquote><p>that was a very simple way to know the time diff , we can use it to know the time taken by some part of the code in the program.</p><blockquote><p>More sophisticated way:</p><p>use Benchmark;<br />sub first {</p><p>my(arguments) = @_;</p><p>}</p><p>timethese(100, { first =&gt; &lsquo;first_sub(arguments)&rsquo;});</p><p>The first argument to timethese is 100 (evaluate 100 times).</p></blockquote><p>Hope this very small tutorial with Benchmark will help people get started.</p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
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