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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/29628?offset=1380</link>
	<atom:link href="https://bioinformaticsonline.com/related/29628?offset=1380" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	
<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/26850/wellcome-trustdbt-india-alliance-margdarshi-fellowships-2016</guid>
  <pubDate>Tue, 29 Mar 2016 17:47:39 -0500</pubDate>
  <link></link>
  <title><![CDATA[Wellcome Trust/DBT India Alliance Margdarshi Fellowships 2016]]></title>
  <description><![CDATA[
<p>The Wellcome Trust/DBT India Alliance invites application for the Margdarshi Fellowship scheme. The scheme provides a unique opportunity for visionary biomedical scientists to lead and nucleate a cutting edge research program in India in collaboration with Indian Host Institution(s). The potential candidates and the Host Institution are encouraged to make a synergistic effort towards establishing a centre of excellence that aims to improve the existing scientific breadth and utilizes the experience of the lead applicant for developing new research platforms. In addition to this, under this programme two eligible Indian institutions may also come together towards creating a new program under the leadership of a visionary scientist.</p>

<p>Eligibility</p>

<p>Interested applicants must</p>

<p>Have around 10 years of experience as independent investigator, and can be of any age or nationality<br />Have Sponsor(s) at not-for-profit Host Institution(s) in India, who is willing to extend the desired commitment and resources for program implementation<br />Provisions</p>

<p>The 5 year Fellowship provides</p>

<p>Generous personal support for the Fellow<br />Salary support for personnel, which may include Assistant Professors<br />Large quantum of funds for equipment, animals and consumables<br />Funds to attend scientific gatherings, for collaborative visits and to organize meetings<br />Overheads for the Host Institution<br />Process</p>

<p>A joint online application is invited from the Applicant and the Sponsor(s). The details of the scheme and the funding mechanism are available on the website at http://wellcomedbt.org/fellowshiptype/margdarshi-fellowships.</p>

<p>Application form can be accessed at https://fellowships.wellcomedbt.org/Login.aspx</p>

<p>Sponsored applications due by 2 May 2016</p>

<p>Send your inquiries to margdarshi@wellcomedbt.org</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/26927/phylographer-graph-visualization-tool</guid>
	<pubDate>Wed, 06 Apr 2016 19:06:48 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/26927/phylographer-graph-visualization-tool</link>
	<title><![CDATA[PhyloGrapher - Graph Visualization Tool]]></title>
	<description><![CDATA[<p><strong>PhyloGrapher</strong><span>&nbsp;is a program designed to visualize and study evolutionary relationships within families of homologous genes or proteins (elements).</span><strong>PhyloGrapher</strong><span>&nbsp;is a drawing tool that generates custom graphs for a given set of elements. In general, it is possible to use&nbsp;</span><strong>PhyloGrapher</strong><span>&nbsp;to visualize any type of relations between elements.&nbsp;</span></p>
<p><span>More at&nbsp;http://www.atgc.org/PhyloGrapher/PhyloGrapher_Welcome.html</span></p><p>Address of the bookmark: <a href="http://www.atgc.org/PhyloGrapher/PhyloGrapher_Welcome.html" rel="nofollow">http://www.atgc.org/PhyloGrapher/PhyloGrapher_Welcome.html</a></p>]]></description>
	<dc:creator>Jitendra Prajapati</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/26915/phd-programme-in-computational-biology</guid>
  <pubDate>Wed, 06 Apr 2016 11:47:35 -0500</pubDate>
  <link></link>
  <title><![CDATA[Ph.D. Programme in Computational Biology]]></title>
  <description><![CDATA[
<p>Ph.D. Programme in Computational Biology</p>

<p>For students interested in frontier research at the interface of biology, computation, physics and applied mathematics</p>

<p>IMSc is a leader in India in fundamental research in theoretical physics, mathematics and theoretical computer science, with several members actively pursuing research in interdisciplinary areas including computational biology.   In 2013 IMSc started a unique Ph.D. programme in this subject, training students to apply cutting-edge computational and mathematical techniques to problems in modern biology, in collaboration with leading biology departments and institutions in India and abroad.  <br />IMSc  is an autonomous national research institute under the Department of Atomic Energy, Government of India, and a constituent institution of the Homi Bhabha National Institute (HBNI), Mumbai (a deemed university).   Ph.D. degrees will be awarded by HBNI.<br />STRUCTURE OF PROGRAMME<br />Before embarking on their research, students have three semesters of coursework, which consists of seven core courses, to be carried out at IMSc; elective courses, which may be taken at IMSc or at other institutions by mutual consent; and lab rotations, at collaborating labs in other institutions. The core coursework covers essentials of modern biology, essential techniques from physics, mathematics, statistics and computer science, physics of proteins and biomolecules, biological sequence analysis and algorithms, and systems biology. Elective coursework covers various topics in greater depth. Following the coursework and a comprehensive examination, students will embark on research leading to a Ph.D. degree.<br />Selected candidates will be research fellows at IMSc and will receive fellowships, housing or house rent allowance, and contingency grants.</p>

<p>More at http://www.imsc.res.in/graduate_programme_0</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>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/31523/research-associate-bioinformatics-recruitment-in-national-bureau-of-plant-genetic-resources</guid>
  <pubDate>Fri, 10 Mar 2017 06:50:51 -0600</pubDate>
  <link></link>
  <title><![CDATA[Research Associate Bioinformatics recruitment in National Bureau of Plant Genetic Resources]]></title>
  <description><![CDATA[
<p>Name of Project  : Indo-UK Centre for improvement of Nitrogen use efficiency in wheat Dr. Soma S. Marla, Pr. Scientist (Bioinformatics), Division of Genomic Resources, ICAR, NBPGR, ND. </p>

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

<p>Qualification : A doctoral (Ph.D). Degree in Bioinformatics OR 1. Masters degree in Bioinformatics or Computer Sciences having 1st division or 60% marks or equivalent overall grade point with at least two years of research experience as evidenced from Fellowship/ Associate ship. 2. NET or equivalent national level examination qualification is essential for the candidates with 3+2 years (B.Sc.+ M.Sc) pattern. Desirable: Demonstrated experience &amp; skills in database design, management, UNIX OS, HPC environment inbased NGS data analysis. Experience substantiated by publications of high quality will be preferred.</p>

<p>Emoluments : Rs. 40,000 (Ph.D)/ Rs + 30 % HRA; 38,000 (Masters) Degree + 30 % HRA.<br />Hiring Process : Walk - In<br />Job Role: Research/JRF/SRF</p>

<p>Candidates should appear by 10.00 AM on 16.03.2016 for registration with relevant documents in the room B4, Bioinformatics Lab, ICAR.NBPGR. old campus, Inderpuri, New Delhi.</p>

<p>The candidates who wish to attend the walk-in interview are requested to bring with them five copies of the CV (one copy with photograph) as per the format given below. Also, the candidates should bring the original documents such as DOB, degree certificates, marks sheets, publications, thesis, experience certificate etc. for verification.</p>

<p>http://www.nbpgr.ernet.in/Downloadfile.aspx?EntryId=7284</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/27225/painless-package-development-for-r</guid>
	<pubDate>Tue, 03 May 2016 05:31:06 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/27225/painless-package-development-for-r</link>
	<title><![CDATA[Painless package development for R]]></title>
	<description><![CDATA[<p>Devtools makes package development a breeze: it works with R&rsquo;s existing conventions for code structure, adding efficient tools to support the cycle of package development. With devtools, developing a package becomes so easy that it will be your default layout whenever you&rsquo;re writing a significant amount of code.</p>
<p>Before you get started be sure to check out:</p>
<ul>
<li><a href="https://groups.google.com/forum/#%21forum/rdevtools" title="Google devtools Group">devtools Google Group &ndash;&nbsp;https://groups.google.com/forum/#!forum/rdevtools</a></li>
<li><a href="http://adv-r.had.co.nz/" title="Hadley W Online Book">book on &ldquo;Advanced R programming&rdquo; &ndash;&nbsp;http://adv-r.had.co.nz/</a></li>
<li><a href="https://github.com/hadley/devtools" title="devtools GitHub">GitHub repository &ndash;&nbsp;https://github.com/hadley/devtools</a></li>
</ul>
<h3 id="getting_started">&nbsp;</h3><p>Address of the bookmark: <a href="https://www.rstudio.com/products/rpackages/devtools/" rel="nofollow">https://www.rstudio.com/products/rpackages/devtools/</a></p>]]></description>
	<dc:creator>Abhi</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/27240/bioinformatics-tutor-at-pgimer</guid>
  <pubDate>Wed, 04 May 2016 08:40:26 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics Tutor at PGIMER]]></title>
  <description><![CDATA[
<p>Postgraduate Institute of Medical Education and Research (PGIMER) - Chandigarh, Chandigarh<br />₹9,300 - ₹34,800 a month<br />Postgraduate Institute of Medical Education and Research (PGIMER), Chandigarh invites Online Applications for recruitment of following Group 'A', 'B' and 'C' posts. The closing date for submission of online applications is up to 12th May 2016.</p>

<p>No of Vacancies: 01<br />Pay Scale: Rs. 9300-34800 + Grade Pay Rs. 4600/-</p>

<p>Educational Qualification and Experience: (From Recognized University / Institute) M.Sc. in Biotechnology, Molecular Biology, Human Genomics / Biochemistry / Biophysics.</p>

<p>Age Limit: 18-50 years</p>

<p>Please see Detailed Advertisement Link for full info: https://drive.google.com/file/d/0Bz3xO6e_7OeeZllINnRyWlN5UFE/view</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/27291/summer-internship-positions-at-dupont</guid>
  <pubDate>Wed, 11 May 2016 08:05:54 -0500</pubDate>
  <link></link>
  <title><![CDATA[Summer internship positions at DuPont]]></title>
  <description><![CDATA[
<p>DuPont Industrial Biosciences has several summer internship positions<br />for undergrads available. We are looking for driven and creative interns<br />to conduct research in the following areas:</p>

<p>· Enzyme immobilization supports for select enzyme systems.</p>

<p>· New tools for microbial strain and genome engineering using<br />state-of-the-art methodologies.</p>

<p>· Rapid high throughput assays to screen microorganisms from various<br />sources for enzymatic activities of interest.</p>

<p>· High throughput combinatorial approaches to the formulation of growth<br />media in support of microbial enrichments, strain isolations and growth<br />optimization.</p>

<p>· Meta-transcriptomics for the discovery of new enzymes.</p>

<p>· Strain adaptation techniques in defined chemostat environments for<br />microbial strain development.</p>

<p>The internships are based at the Experimental Station R&amp;D Center in<br />Wilmington, DE.</p>

<p>If interested, apply fast!</p>

<p>For more information and to apply, go to:</p>

<p>http://careers.dupont.com/jobsearch/job-details/industrial-biosciences-summer-internship/008549W-10/</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/27321/slurm-basics</guid>
	<pubDate>Fri, 13 May 2016 04:42:24 -0500</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/27321/slurm-basics</link>
	<title><![CDATA[SLURM basics !]]></title>
	<description><![CDATA[<p><a href="http://bioinformaticsonline.com/bookmarks/view/27238/slurm" target="_blank">SLURM</a> is a queue management system and stands for Simple Linux Utility for Resource Management. SLURM was developed at the Lawrence Livermore National Lab and currently runs some of the largest compute clusters in the world.</p><p>SLURM is similar in many ways to most other queue systems. You write a batch script then submit it to the queue manager. The queue manager then schedules your job to run on the queue (or partition in SLURM parlance) that you designate. Below we will provide an outline of how to submit jobs to SLURM, how SLURM decides when to schedule your job and how to monitor progress.</p><p>SLURM has a number of valuable features compared to other job management systems:</p><ul>
<li><em>Kill and Requeue</em> SLURM&rsquo;s ability to kill and requeue is superior to that of other systems. It waits for jobs to be cleared before scheduling the high priority job. It also does kill and requeue on memory rather than just on core count.</li>
<li><em>Memory</em> Memory requests are sacrosanct in SLURM. Thus the amount of memory you request at run time is guaranteed to be there. No one can infringe on that memory space and you cannot exceed the amount of memory that you request.</li>
<li><em>Accounting Tools</em> SLURM has a back end database which stores historical information about the cluster. This information can be queried by the users who are curious about how much resources they have used.</li>
</ul><p><strong>Summary of SLURM commands</strong></p><p>The table below shows a summary of SLURM commands. These commands are described in more detail below along with links to the SLURM doc site.</p><table>
<tbody>
<tr><th>&nbsp;</th><th>SLURM</th><th>SLURM Example</th></tr>
<tr>
<td>Submit a batch serial job</td>
<td><a href="http://slurm.schedmd.com/sbatch.html">sbatch</a></td>
<td><code>sbatch runscript.sh</code></td>
</tr>
<tr>
<td>Run a script interatively</td>
<td><a href="http://slurm.schedmd.com/srun.html">srun</a></td>
<td><code>srun --pty -p interact -t 10 --mem 1000 /bin/bash /bin/hostname</code></td>
</tr>
<tr>
<td>Kill a job</td>
<td><a href="http://slurm.schedmd.com/scancel.html">scancel</a></td>
<td><code>scancel 999999</code></td>
</tr>
<tr>
<td>View status of queues</td>
<td><a href="http://slurm.schedmd.com/squeue.html">squeue</a></td>
<td><code>squeue -u akitzmiller</code></td>
</tr>
<tr>
<td>Check current job by id</td>
<td><a href="http://slurm.schedmd.com/squeue.html">sacct</a></td>
<td><code>sacct -j 999999</code></td>
</tr>
</tbody>
</table>]]></description>
	<dc:creator>Radha Agarkar</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/27461/maftools</guid>
	<pubDate>Sat, 21 May 2016 22:40:21 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/27461/maftools</link>
	<title><![CDATA[mafTools]]></title>
	<description><![CDATA[<p><span>Bioinformatics tools for dealing with Multiple Alignment Format (MAF) files.</span></p><p>Address of the bookmark: <a href="https://github.com/dentearl/mafTools" rel="nofollow">https://github.com/dentearl/mafTools</a></p>]]></description>
	<dc:creator>Radha Agarkar</dc:creator>
</item>

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