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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/42664?offset=60</link>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/11735/search-shell-command-history</guid>
	<pubDate>Thu, 12 Jun 2014 17:43:34 -0500</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/11735/search-shell-command-history</link>
	<title><![CDATA[Search Shell Command History]]></title>
	<description><![CDATA[<p>We use couple of hundreads of command in daily basis. Most of them are actually repeated several time. The question remain open how do I search old command history under bash shell and modify or reuse it? <br /><br />Now a days almost all modern shell allows you to search command history if enabled by user. Use history command to display the history list with line numbers. Lines listed with with a * have been modified by user.</p><p><br /><strong>Shell history search command</strong><br /><br />Type history at a shell prompt:<br />$ history</p><p>It will display the list of all used commandline history with an serial number.<br /><br />To search particular command, enter:<br />$ history | grep command-name<br />$ history | egrep -i 'scp|ssh|ftp'<br />Emacs Line-Edit Mode Command History Searching<br /><br />To get previous command containing string, hit [CTRL]+[r] followed by search string:<br /><br />(reverse-i-search): <br /><br />To get previous command, hit [CTRL]+[p]. You can also use up arrow key.<br /><br />CTRL-p<br /><br />To get next command, hit [CTRL]+[n]. You can also use down arrow key.<br /><br />CTRL-n<br /><br /></p><p><strong>fc command</strong></p><p>Apart from hostory command there are fc command to extract the command from history. The fc stands for either "find command" or "fix command.</p><p>For example list last 10 command, enter:<br />$ fc -l 10<br />To list commands 130 through 150, enter:<br />$ fc -l 130 150<br />To list all commands since the last command beginning with ssh, enter:<br />$ fc -l ssh<br />You can edit commands 1 through 5 using vi text editor, enter:<br />$ fc -e vi 1 5</p><p><strong>Delete command history</strong><br /><br />The -c option causes the history list to be cleared by deleting all of the entries:<br />$ history -c</p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
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  <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/opportunity/view/21680/research-associate-at-national-research-centre-on-plant-biotechnology-new-delhi</guid>
  <pubDate>Mon, 16 Mar 2015 03:22:26 -0500</pubDate>
  <link></link>
  <title><![CDATA[Research Associate at National Research Centre on Plant Biotechnology New Delhi]]></title>
  <description><![CDATA[
<p>Walk-in interview will be held on 24-03-2015 at 10:00 AM at NRCPB, New Delhi for filling Research Associate and Senior Research Fellow positions as mentioned below. The positions are temporary and are initially offered for a period of one year. Details such as emoluments, qualifications, application format etc., are given below. Desirous candidates should report for interview latest by 10:30 AM with the application in the prescribed format, copies and originals of certificates, thesis and documents. No TA/DA will be provided for attending the interview.</p>

<p>ICAR-NPTC: Fibre development in flax/linseed.</p>

<p>(Job # 1) Research Associate (one) (Bioinformatics)</p>

<p>Rs.24000+ 30% HRA) for Ph.D. and for M. Sc Rs.23000/‐ (+ 30% HRA)</p>

<p>Ph.D. Degree in Bioinformatics/Molecular Biology/Biotechnology/ Genetics/allied sciences; or M. Sc in Bioinformatics/ Biotechnology/Life Sciences/ allied sciences with 1st division or 60% marks or equivalent overall grade point average with at least two years of research experience as evidenced from Fellowship/ Associate ship. 2 years research experience in bioinformatic data analysis/molecular biology techniques, and high throughput DNA/RNA sequencing, and transcriptome data analysis. Research paper with IF&gt;1 will be desirable</p>

<p>ICAR-NPTC: Shade avoidance/low-light tolerance in rice.</p>

<p>General Terms &amp; Conditions applicable to all the positions: <br />Age Limit: 35 years max. (5 years relaxation for SC/ST/OBC and woman candidates as per ICAR rules). <br />The positions are purely temporary, on a contractual basis and are initially offered for one year. <br />Originals must be shown for verification. 7. Research experience (Experience certificate from previous employer to be attached): I hereby declare that the information provided above is true to the best of my knowledge. Date: Signature</p>

<p>Advertisement:</p>

<p>www.nrcpb.org/sites/default/files/ICAR-NPTC%20DBT%20RA%20SRF%20interview%2024th%20March.pdf</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/poll/view/22920/how-long-have-you-been-a-bioinformatics-scientist-for</guid>
	<pubDate>Tue, 23 Jun 2015 10:55:33 -0500</pubDate>
	<link>https://bioinformaticsonline.com/poll/view/22920/how-long-have-you-been-a-bioinformatics-scientist-for</link>
	<title><![CDATA[How long have you been a bioinformatics scientist for?]]></title>
	<description><![CDATA[<p>Most of the researcher have been a scientist whole life, but infact they actually started paying&nbsp; it with at certain time.So, how long have you been in bioinformatics domain now?</p>]]></description>
	<dc:creator>Jit</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/26306/busco</guid>
	<pubDate>Sun, 07 Feb 2016 16:02:39 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/26306/busco</link>
	<title><![CDATA[BUSCO]]></title>
	<description><![CDATA[<p>Assessing genome assembly and annotation completeness with Benchmarking Universal Single-Copy Orthologs</p>
<p>More at http://busco.ezlab.org/</p><p>Address of the bookmark: <a href="http://busco.ezlab.org/" rel="nofollow">http://busco.ezlab.org/</a></p>]]></description>
	<dc:creator>Jitendra Narayan</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/26573/efficient-genome-searching-with-biostrings-and-the-bsgenome-data-package</guid>
	<pubDate>Mon, 07 Mar 2016 05:18:06 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/26573/efficient-genome-searching-with-biostrings-and-the-bsgenome-data-package</link>
	<title><![CDATA[Efficient genome searching with Biostrings and the BSgenome data package]]></title>
	<description><![CDATA[<p>Address of the bookmark: <a href="https://www.bioconductor.org/packages/3.3/bioc/vignettes/BSgenome/inst/doc/GenomeSearching.pdf" rel="nofollow">https://www.bioconductor.org/packages/3.3/bioc/vignettes/BSgenome/inst/doc/GenomeSearching.pdf</a></p>]]></description>
	<dc:creator>Aasha</dc:creator>
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	<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>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/27479/biogps</guid>
	<pubDate>Mon, 23 May 2016 03:15:46 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/27479/biogps</link>
	<title><![CDATA[BioGPS]]></title>
	<description><![CDATA[<p>A free&nbsp;<em>extensible</em>&nbsp;and&nbsp;<em>customizable</em>&nbsp;<strong>gene annotation portal</strong>, a complete resource for learning about&nbsp;<strong>gene and protein function</strong>.</p>
<p>http://biogps.org/#goto=welcome</p><p>Address of the bookmark: <a href="http://biogps.org/#goto=welcome" rel="nofollow">http://biogps.org/#goto=welcome</a></p>]]></description>
	<dc:creator>Anjana</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/27679/cluego</guid>
	<pubDate>Thu, 02 Jun 2016 09:51:44 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/27679/cluego</link>
	<title><![CDATA[ClueGO]]></title>
	<description><![CDATA[<p>ClueGO is a Cytoscape plug-in that visualizes the non-redundant biological terms for large clusters of genes in a functionally grouped network and it can be used in combination with GOlorize.</p><p>Address of the bookmark: <a href="http://www.ici.upmc.fr/cluego/" rel="nofollow">http://www.ici.upmc.fr/cluego/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/27696/methylkit</guid>
	<pubDate>Fri, 03 Jun 2016 10:09:29 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/27696/methylkit</link>
	<title><![CDATA[methylKit]]></title>
	<description><![CDATA[<p><em>methylKit</em> is an <a href="http://en.wikipedia.org/wiki/R_%28programming_language%29">R</a> package for DNA methylation analysis and annotation from high-throughput bisulfite sequencing. The package is designed to deal with sequencing data from <a href="http://www.nature.com/nprot/journal/v6/n4/abs/nprot.2010.190.html">RRBS</a> and its variants, but also target-capture methods such as <a href="http://www.halogenomics.com/sureselect/methyl-seq">Agilent SureSelect methyl-seq</a>. In addition, methylKit can deal with base-pair resolution data for 5hmC obtained from Tab-seq or oxBS-seq. It can also handle whole-genome bisulfite sequencing data if proper input format is provided.</p><p>Address of the bookmark: <a href="https://github.com/al2na/methylKit" rel="nofollow">https://github.com/al2na/methylKit</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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