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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/19820?offset=640</link>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24984/ra-bioinformatics-at-nii</guid>
  <pubDate>Thu, 22 Oct 2015 01:56:26 -0500</pubDate>
  <link></link>
  <title><![CDATA[RA Bioinformatics at NII]]></title>
  <description><![CDATA[
<p>NATIONAL INSTITUTE OF IMMUNOLOGY</p>

<p>NEW DELHI-110067</p>

<p>Applications are invited for the position of Research Associate (RA) for the following time-bound sponsored project as per the details given below:</p>

<p>1. BTIS project entitled, “National Infrastructural Facility in the Area of Immunology” funded by DBT</p>

<p>Research Associate (One Position only)</p>

<p>Dr. Debasisa Mohanty Staff Scientist-VI deb@nii.res.in</p>

<p>Educational Qualifications: Ph.D in Bioinformatics or Biological Sciences or Biotechnology with research experience and publication record in indexed peer reviewed journals in the area of bioinformatics or computational biology.</p>

<p>Emoluments: The selected candidates will draw consolidated emoluments as per Institute Rules, depending upon qualifications &amp; experience Research Associate: Rs. 36,000/- per month plus 30% HRA</p>

<p>Job description &amp; Desired Knowledge: The candidate should be well versed in Programming in PERL/C++, HTML, CGI, web sever and portal development, computational analysis of protein structure &amp; function, molecular dynamics simulations and use of high performance computing systems.</p>

<p>General Terms &amp; Conditions:-</p>

<p>1. The candidates selected for the above posts will be on contract for one year or duration of the project whichever is shorter, at a time.</p>

<p>2. No hostel/ housing facility will be provided.</p>

<p>3. Applicants may clearly mention the category they belong to i.e. SC/ST/OBC/PH and attach documentary proof of the same.</p>

<p>4. No TA/DA will be paid for attending the interview, if called for.</p>

<p>5. Apart from sending application in the prescribed format given below, candidates should send complete Curriculum Vitae along with the names of three referees. Curriculum Vitae should contain details of the experimental expertise and list of publications. 6. Canvassing in any form will be a disqualification.</p>

<p>HOW TO APPLY Interested candidates may apply directly, STRICTLY IN THE PRESCRIBED FORMAT GIVEN BELOW, through e-mail, to the Investigator of the project, clearly indicating the name of the project along with their complete C.V., Email ID, fax numbers, telephone numbers. Only Short listed candidates will be called for interview and they required to submit attested copies of all their certificates and a Demand Draft of Rs 100/- drawn on Canara Bank or Indian Bank payable at Delhi/New Delhi in favour of the Director, NII (SC/ST/PH and Women candidates are exempted from payment of fees) subject to submission of documentary proof), at the time of interview. (E-MAIL APPLICATIONS SHOULD MENTION BTIS-RA 2015 IN THE SUBJECT LINE)</p>

<p>LAST DATE OF RECEIPT OF APPLICATIONS: 29th October, 2015</p>

<p>Advertisement:</p>

<p>www1.nii.res.in/sites/default/files/projectappointments-Dr.Mohanty-29oct2015.pdf</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/researchlabs/view/11107/the-minerva-research-group-for-bioinformatics</guid>
  <pubDate>Tue, 27 May 2014 15:48:14 -0500</pubDate>
  <link></link>
  <title><![CDATA[The Minerva Research Group for Bioinformatics]]></title>
  <description><![CDATA[
<p>The focus of the bioinformatics group is to use computational approaches to gain an insight into genome evolution in primates.</p>

<p>http://www.eva.mpg.de/genetics/bioinformatics/overview.html?Fsize=0%2C%20%40%2F%27</p>

<p>Kelso Group<br />Department of Evolutionary Genetics<br />Max Planck Institute for Evolutionary Anthropology<br />Deutscher Platz 6<br />04103 Leipzig<br />Germany<br />Phone: +49 341 3550 500</p>

<p>Job: <br />http://www.eva.mpg.de/genetics/bioinformatics/jobs.html?Fsize=0%2C%2B%40</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>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/120/user</guid>
	<pubDate>Wed, 10 Jul 2013 14:41:49 -0500</pubDate>
	<link>https://bioinformaticsonline.com/news/view/120/user</link>
	<title><![CDATA[useR!]]></title>
	<description><![CDATA[<p><span>The R project actively supports two conference series, organized regularly by members from the R community: useR! - providing a forum to the R user community - and DSC - a platform for developers of statistical software.</span></p><p><span>Recently useR! conference have been organized&nbsp;<span>University of Castilla-La Mancha, Albacete, Spain.</span></span></p><p><a href="http://www.edii.uclm.es/~useR-2013//">http://www.edii.uclm.es/~useR-2013//</a></p><p>&nbsp;</p>]]></description>
	<dc:creator>Jitendra Narayan</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/8848/upgrade-r-303</guid>
	<pubDate>Mon, 10 Mar 2014 11:23:51 -0500</pubDate>
	<link>https://bioinformaticsonline.com/news/view/8848/upgrade-r-303</link>
	<title><![CDATA[Upgrade R 3.0.3]]></title>
	<description><![CDATA[<p>R is a free software programming language and software environment for statistical computing and graphics. The R language is widely used among statisticians and data miners for developing statistical software and data analysis. Polls and surveys of data miners are showing R's popularity has increased substantially in recent years. Recently the new version of R codename &ldquo;Warm Puppy" have been released.<br /><br />You can download the latest version from here http://cran.rstudio.com/ . Or, if you are using Windows, you can upgrade to the latest version using the installr package http://cran.r-project.org/web/packages/installr/ . Simply run the following code:<br /><br /># installing/loading the package:<br />if(!require(installr)) { <br />install.packages("installr"); require(installr)} #load / install+load installr<br />&nbsp;<br />updateR()<br /><br />I try to keep the installr package updated and useful. If you have any suggestions or remarks on the package, you&rsquo;re invited to leave a comment below.<br /><br />If you use the global library system http://www.r-statistics.com/2010/04/changing-your-r-upgrading-strategy-and-the-r-code-to-do-it-on-windows/ , you can run the following in the new version of R:<br /><br />source("http://www.r-statistics.com/wp-content/uploads/2010/04/upgrading-R-on-windows.r.txt")<br />New.R.RunMe()</p><p>Reference:</p><p>http://www.r-statistics.com/2014/03/r-3-0-3-is-released/</p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/33592/circular-plots-in-r</guid>
	<pubDate>Mon, 19 Jun 2017 06:20:27 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/33592/circular-plots-in-r</link>
	<title><![CDATA[Circular plots in R]]></title>
	<description><![CDATA[<div>
<p><strong>Circular plots</strong>&nbsp;are useful to represent complicated informations. They are used in 2 specific cases: when you have long axis and numerous categories, and when you want to show relationships between elements. The&nbsp;<a href="http://circos.ca/images/samples/" target="_blank">circos gallery</a>&nbsp;displays several examples of circular plots, what gives a nice overview of the possibilities. Circos is the most famous</p>
</div>
<div>
<p>tool to create circular plots. Thanks to&nbsp;<a href="https://www.linkedin.com/in/zuguanggu" target="_blank">Zuguang Gu</a>, the&nbsp;<a href="https://cran.r-project.org/web/packages/circlize/vignettes/circlize.pdf" target="_blank">Circlize library</a>&nbsp;makes the circos functions available in R! It implements low-level graphic functions for adding common graphics in a circular layout. This page aims to learn you how to use the library, so I strongly advise to read the graphics in the proposed order!</p>
<p><img src="http://www.r-graph-gallery.com/wp-content/uploads/2016/03/122_Circlize_package.png" width="480" height="480" alt="image" style="border: 0px;"></p>
</div>
<p>http://www.r-graph-gallery.com/portfolio/circular-plot/</p><p>Address of the bookmark: <a href="http://www.r-graph-gallery.com/portfolio/circular-plot/" rel="nofollow">http://www.r-graph-gallery.com/portfolio/circular-plot/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/11592/xampp-starting-apache-fail-ubuntu</guid>
	<pubDate>Sat, 07 Jun 2014 05:52:35 -0500</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/11592/xampp-starting-apache-fail-ubuntu</link>
	<title><![CDATA[XAMPP: Starting Apache fail Ubuntu]]></title>
	<description><![CDATA[<p>Once you install XAMMP on linux, the most common problem you face is Apache failure. To fix the issues please use following command to first stop and then again start it.</p><p>sudo /etc/init.d/apache2 stop</p><p>sudo /etc/init.d/mysql stop</p><p>sudo /etc/init.d/proftpd stop</p><p>sudo /opt/lampp/lampp start</p><p>&nbsp;</p><p><strong>PhpMyAdmin &ldquo;Wrong permissions on configuration file, should not be world writable!&rdquo;</strong></p><p>Once the Xammp is installed, it might be possible to set up the configuration file in writable mode. Try the following steps:</p><p>Just chmod 0755 the file</p><pre>sudo chmod 0755 config.inc.php</pre>]]></description>
	<dc:creator>Ram Yash Pal</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34396/pore-an-r-package-for-the-visualization-and-analysis-of-nanopore-sequencing-data</guid>
	<pubDate>Thu, 23 Nov 2017 09:55:57 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34396/pore-an-r-package-for-the-visualization-and-analysis-of-nanopore-sequencing-data</link>
	<title><![CDATA[poRe: an R package for the visualization and analysis of nanopore sequencing data]]></title>
	<description><![CDATA[<p><strong>Motivation:</strong>&nbsp;The Oxford Nanopore MinION device represents a unique sequencing technology. As a mobile sequencing device powered by the USB port of a laptop, the MinION has huge potential applications. To enable these applications, the bioinformatics community will need to design and build a suite of tools specifically for MinION data.</p>
<p><strong>Results:</strong>&nbsp;Here we present poRe, a package for R that enables users to manipulate, organize, summarize and visualize MinION nanopore sequencing data. As a package for R, poRe has been tested on Windows, Linux and MacOSX. Crucially, the Windows version allows users to analyse MinION data on the Windows laptop attached to the device.</p>
<p><strong>Availability and implementation:</strong>&nbsp;poRe is released as a package for R at&nbsp;<a href="http://sourceforge.net/projects/rpore/" target="">http://sourceforge.net/projects/rpore/</a>&nbsp;. A tutorial and further information are available at&nbsp;<a href="https://sourceforge.net/p/rpore/wiki/Home/" target="">https://sourceforge.net/p/rpore/wiki/Home/</a></p>
<p><strong>Contact:</strong><a href="mailto:mick.watson@roslin.ed.ac.uk" target="">mick.watson@roslin.ed.ac.uk</a></p><p>Address of the bookmark: <a href="https://academic.oup.com/bioinformatics/article/31/1/114/2365693" rel="nofollow">https://academic.oup.com/bioinformatics/article/31/1/114/2365693</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/videolist/watch/12288/genomic-medicine-bruce-korf-2014</guid>
	<pubDate>Tue, 24 Jun 2014 07:58:44 -0500</pubDate>
	<link>https://bioinformaticsonline.com/videolist/watch/12288/genomic-medicine-bruce-korf-2014</link>
	<title><![CDATA[Genomic Medicine - Bruce Korf (2014)]]></title>
	<description><![CDATA[<iframe width="" height="" src="https://www.youtube-nocookie.com/embed/FYldIrsXHKw" frameborder="0" allowfullscreen></iframe>May 21, 2014 - Current Topics in Genome Analysis 2014
A lecture series covering contemporary areas in genomics and bioinformatics. More: http://www.genome.gov/COURSE2014]]></description>
	
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/35437/dupradar-package</guid>
	<pubDate>Sun, 04 Feb 2018 14:28:57 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/35437/dupradar-package</link>
	<title><![CDATA[dupRadar package]]></title>
	<description><![CDATA[<p><span>The&nbsp;</span><em>dupRadar</em><span>&nbsp;package gives an insight into the duplication problem by graphically relating the gene expression level and the duplication rate present on it. Thus, failed experiments can be easily identified at a glance</span></p><p>Address of the bookmark: <a href="https://bioconductor.org/packages/3.7/bioc/vignettes/dupRadar/inst/doc/dupRadar.html" rel="nofollow">https://bioconductor.org/packages/3.7/bioc/vignettes/dupRadar/inst/doc/dupRadar.html</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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