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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/27839?offset=260</link>
	<atom:link href="https://bioinformaticsonline.com/related/27839?offset=260" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/33866/perlbrew-admin-free-perl-installation-management-tool</guid>
	<pubDate>Wed, 12 Jul 2017 03:53:08 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/33866/perlbrew-admin-free-perl-installation-management-tool</link>
	<title><![CDATA[Perlbrew: admin-free perl installation management tool.]]></title>
	<description><![CDATA[<p>perlbrew is an admin-free perl installation management tool. The latest version is 0.79, read the release note:&nbsp;<a href="https://perlbrew.pl/Release-0.79.html">Release 0.79</a>.&nbsp;</p>
<p>Copy &amp; Paste this line into your terminal:</p>
<pre><code>\curl -L https://install.perlbrew.pl | bash
</code></pre>
<p>Or, if your system does not have curl but something else:</p>
<pre><code># Linux
\wget -O - https://install.perlbrew.pl | bash

# FreeBSD
\fetch -o- https://install.perlbrew.pl | sh
</code></pre>
<p>If you prefer to install with cpan, there are two steps:</p>
<pre><code>sudo cpan App::perlbrew
perlbrew init
</code></pre>
<p>If it is installed with cpan, the perlbrew executable should be installed as&nbsp;<code>/usr/bin/perlbrew</code>&nbsp;or&nbsp;<code>/usr/local/bin/perlbrew</code>. For all users who want to use perlbrew, a prior&nbsp;<code>perlbrew init</code>&nbsp;needs to be executed.</p>
<p>The default perlbrew root directory is&nbsp;<code>~/perl5/perlbrew</code>, which can be changed by setting&nbsp;<code>PERLBREW_ROOT</code>environment variable before the installation and initialization. For more advanced installation process, please read&nbsp;<a href="http://metacpan.org/module/App::perlbrew">the perlbrew document</a>.</p>
<p>&nbsp;</p><p>Address of the bookmark: <a href="https://perlbrew.pl/" rel="nofollow">https://perlbrew.pl/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21685/uiar-short-term-trainingfinal-year-dissertation-project-in-life-sciencesbioinformaticsbiotech</guid>
  <pubDate>Mon, 16 Mar 2015 23:56:25 -0500</pubDate>
  <link></link>
  <title><![CDATA[UIAR Short-Term Training/Final Year Dissertation Project in Life Sciences/Bioinformatics/Biotech]]></title>
  <description><![CDATA[
<p>Short-term training/Final year dissertation project</p>

<p>Candidates desirous of doing a short-term training / final year dissertation project for MSc (Life Sciences/Bioinformatics/Biotechnology or any science discipline) at UIAR Biophysics and Bioinformatics department may please drop an email atanju@iiar.res.in along with their resume.</p>

<p>Selected candidates will be further intimated. There will be a fees charged for doing the project at UIAR. The projects will be experimental or computational or involve both.</p>

<p>The training scope will be in the following areas but not limited to:</p>

<p>Bioinformatics analysis, Docking and Virtual screening, Molecular Dynamics simulation, Cloning, expression and purification of proteins, Biophysical and Biochemical characterisation of proteins, Crystallization and Structural Studies.</p>

<p>Advertisement: www.iiar.res.in/?q=node/450</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34493/plast-a-fast-accurate-and-ngs-scalable-bank-to-bank-sequence-similarity-search-tool</guid>
	<pubDate>Fri, 01 Dec 2017 04:10:54 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34493/plast-a-fast-accurate-and-ngs-scalable-bank-to-bank-sequence-similarity-search-tool</link>
	<title><![CDATA[PLAST: A fast, accurate and NGS scalable bank-to-bank sequence similarity search tool]]></title>
	<description><![CDATA[<p><strong>PLAST is a fast, accurate and NGS scalable bank-to-bank sequence similarity search tool providing significant accelerations of seeds-based heuristic comparison methods, such as the Blast suite of algorithms.</strong></p>
<p><strong>Relying on unique software architecture, PLAST takes full advantage of recent multi-core personal computers without requiring any additional hardware devices.</strong></p>
<p>PLAST stands for&nbsp;<em>Parallel Local Sequence Alignment Search Tool&nbsp;</em>and is was&nbsp;<a href="http://www.biomedcentral.com/1471-2105/10/329" target="_blank">published in BMC Bioinformatics.</a></p>
<p>PLAST is a general purpose sequence comparison tool providing the following benefits:</p>
<ul>
<li>PLAST is a high-performance sequence comparison tool designed to compare two sets of sequences (query vs. reference),</li>
<li>Reduces the processing time of sequences comparisons while providing highest quality results,</li>
<li>Contains a fully integrated data filtering engine capable of selecting relevant hits with user-defined criteria (E-Value, identity, coverage, alignment length, etc.),</li>
<li>Does not require any additional hardware, since it is a software solution. It is easy to install, cost-effective, takes full advantage of multi-core processors and uses a small RAM footprint,</li>
<li>Ready to be used on desktop computer, cluster, cloud as well as within distributed system running Hadoop.</li>
</ul>
<p>https://plast.inria.fr/</p><p>Address of the bookmark: <a href="https://plast.inria.fr/" rel="nofollow">https://plast.inria.fr/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21894/bioinformatics-engineer-algorithm-development</guid>
  <pubDate>Wed, 01 Apr 2015 21:39:05 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics Engineer -- Algorithm Development]]></title>
  <description><![CDATA[
<p>Centrillion Biosciences is a venture backed life sciences company located in Palo Alto, California. The company provides high quality genomic services to academic and industrial customers including top universities and research institutes. Centrillion Biosciences has an immediate opening for a full-time Bioinformatics Engineer. We're looking for an energetic, innovative, and motivated person who works well independently and on teams. The ideal candidate will have experience designing and implementing efficient algorithms to process large datasets. The role will involve collaborating with research scientists and other engineers, so strong communication skills are a must.</p>

<p>Job Description</p>

<p>• Work within a fast-paced, collaborative environment with small project teams working on a variety of tasks ranging from new product development to DNA data processing<br />• Collaborate with Centrillion research scientists in order to bridge the gap between the laboratory and the digital world<br />• Develop tools to enable research projects to cope with the enormous amounts of data produced by modern DNA sequencing experiments<br />• Build simulation algorithms to help guide and analyze research done in the lab<br />• Solve challenging engineering problems that require the development of innovative algorithms</p>

<p>Requirements</p>

<p>• Strong background in mathematics/statistics with a degree in a related field<br />• Strong analytical, coding, communication, and organizational skills<br />• Experience with algorithm development, simulations, and data analysis<br />• Proficiency in at least one modern programming language (like Python or Perl)<br />• Experience analyzing genetic and biological data sets (e.g., DNA data analysis and image analysis)<br />• Experience with machine learning and pattern recognition is preferred</p>

<p>Please submit your resume at https://www.centrillionbio.com/career/ to apply for this position.</p>
]]></description>
</item>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34594/synima-synteny-imaging-tool</guid>
	<pubDate>Sun, 10 Dec 2017 17:03:48 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34594/synima-synteny-imaging-tool</link>
	<title><![CDATA[Synima: Synteny Imaging tool]]></title>
	<description><![CDATA[<p><span>Synteny Imaging tool (Synima) written in Perl, which uses the graphical features of R. Synima takes orthologues computed from reciprocal best BLAST hits or OrthoMCL, and DAGchainer, and outputs an overview of genome-wide synteny in PDF. Each of these programs are included with the Synima package, and a pipeline for their use. Synima has a range of graphical parameters including size, colours, order, and labels, which are specified in a config file generated by the first run of Synima &ndash; and can be subsequently edited. Synima runs quickly on a command line to generate informative and publication quality figures. Synima is open source and freely available from&nbsp;</span><span><a href="https://github.com/rhysf/Synima"><span>https://github.com/rhysf/Synima</span></a></span><span>&nbsp;under the MIT License.</span></p><p>Address of the bookmark: <a href="https://github.com/rhysf/Synima" rel="nofollow">https://github.com/rhysf/Synima</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/22283/iihr-recruitment-2015-%E2%80%93-srf-project-asst-research-associate-posts</guid>
  <pubDate>Wed, 06 May 2015 06:13:26 -0500</pubDate>
  <link></link>
  <title><![CDATA[IIHR Recruitment 2015 – SRF, Project Asst &amp; Research Associate Posts]]></title>
  <description><![CDATA[
<p>IIHR Recruitment 2015 – SRF, Project Asst &amp; Research Associate Posts: ICAR-Indian Institute of Horticultural Research (IIHR) has published a notification for the recruitment of Senior Research Fellow, Project Assistant and Research Associate vacancies on temporary basis. Eligible candidates may apply in prescribed application format on or before 15-05-2015. Other details like age, educational qualification, selection process, how to apply are given below…</p>

<p>IIHR Vacancy Details:<br />Total No. of Posts: 14<br />Name of the Post:<br />1. Senior Research Fellow: 12 Posts<br />2. Project Assistant: 01 Post<br />3. Research Associate: 01 Post</p>

<p>Age Limit: Candidates age limit is 40 years for men &amp; 45 years for women for RA post, 35 years for men &amp; 40 years for women for SRF post, 30 years for men &amp; 35 years for women for JRF post and 21 to 40 years for Other as on closing date of receipt of applications. Age relaxation is applicable as per rules.</p>

<p>Educational Qualification: Candidates should possess M.Sc (Ag) Plant Pathology or Microbiology or Biotechnology or Biochemistry or M.Tech (Ag) or Bioinformatics for SRF Posts, 10th class with experience in workshop (welding fitting) for Project Asst Post and M.Sc (Ag) Plant Pathology or M.Sc (Ag) Biotechnology or Ph.D in Plant Pathology or Agricultural Biotechnology for RA Post.</p>

<p>Selection Process: Candidates will be selected based on their performance in interview.</p>

<p>How to Apply: Eligible candidates may send their application in the prescribed format along with attested copies of relevant certificates and should mention name of PI/ Co-PI, Item No. of the Post &amp; name of the post clearly on the application as well as on the cover to the Concerned PI/ Co-PI, Indian Institute of Horticultural Research, Hessaraghatta Lake Post, Bengaluru-560089 on or before 15-05-2015 and attend the interview along with originals, two passport size photographs on 26 &amp; 27-05-2015 from 10:00 AM Onwards.</p>

<p>Important Dates:<br />Last Date for Receipt of Applications: 15-05-2015.<br />Date &amp; Time of Interview: 26 &amp; 27-05-2015 from 10:00 AM Onwards.<br />Venue: IIHR Campus.</p>

<p>More at http://www.iihr.ernet.in/content/srf-jrf-application-format</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/35885/multi-car-a-tool-of-contig-scaffolding-using-multiple-references</guid>
	<pubDate>Tue, 06 Mar 2018 16:39:41 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/35885/multi-car-a-tool-of-contig-scaffolding-using-multiple-references</link>
	<title><![CDATA[Multi-CAR: a tool of contig scaffolding using multiple references]]></title>
	<description><![CDATA[<p><span>we design a simple heuristic method to further revise our single reference-based scaffolding tool CAR into a new one called Multi-CAR such that it can utilize multiple complete genomes of related organisms as references to more accurately order and orient the contigs of a draft genome. In practical usage, our Multi-CAR does not require prior knowledge concerning phylogenetic relationships among the draft and reference genomes and libraries of paired-end reads. To validate Multi-CAR, we have tested it on a real dataset composed of several prokaryotic genomes and also compared its accuracy performance with other multiple reference-based scaffolding tools Ragout and MeDuSa.&nbsp;</span></p><p>Address of the bookmark: <a href="http://genome.cs.nthu.edu.tw/Multi-CAR/" rel="nofollow">http://genome.cs.nthu.edu.tw/Multi-CAR/</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/22017/binc-2015</guid>
	<pubDate>Sat, 11 Apr 2015 20:35:27 -0500</pubDate>
	<link>https://bioinformaticsonline.com/news/view/22017/binc-2015</link>
	<title><![CDATA[BINC 2015 !!!]]></title>
	<description><![CDATA[<p>Pondicherry University,Puducherry,on behalf of Department of Biotechnology, Government of India, will conduct the BINC examination in2015. The objective of this examination is to certify bioinformatics professionals, trained formally as well as self-trained.Registration will open from March 9,2015 to April 30,2015. Pondicherry University, Puducherry has been identified as a nodal agency by the Department of Biotechnology, Govt. of India to coordinate this examination along with nine centres namely, Pune University, Pune; Anna University, Chennai; Calcutta University, Kolkata; Institute of Bioinformatics &amp; Applied Biotechnology, Bangalore; North-Eastern Hill University, Shillong, University of Hyderabad, Hyderabad; University of Kerala, Thiruvananthapuram; Jawaharlal Nehru University, New Delhi and Assam Agricultural University, Guwahati. In the BINC 2013 examination,17 candidates were certified. DBT has agreed to fund Research fellowships for all the BINC qualified Indian nationals to pursue Ph.D. in Indian Institutes/Universities. Note that the candidate must possess a postgraduate degree(or equivalent) &amp; meet the criteria of the institutes/universities in order to avail research fellowship. In addition, cash prize of Rs. 10,000/- will be awarded to the top 10 BINC qualifiers.</p><p>More at http://www.binc.co.in/College/Index_New.aspx</p><p>BINC notification http://www.binc.co.in/PdfDocuments/Notification.pdf</p><p>Few dates to remember:</p><p>Starting of online submission of application: March 9, 2015<br />Last date for submission of application: April 30,2015<br />Examination consists of two parts:<br />Part I (Paper I) : June 7, 2015 (10 AM-12 PM)<br />Part II ( Paper II &amp; III) :June 28, 2015 (9 AM-12 PM &amp; 2 PM-4 PM)</p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36907/higlass-a-tool-for-exploring-genomic-contact-matrices-and-tracks</guid>
	<pubDate>Mon, 11 Jun 2018 09:44:49 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36907/higlass-a-tool-for-exploring-genomic-contact-matrices-and-tracks</link>
	<title><![CDATA[HiGlass: a tool for exploring genomic contact matrices and tracks.]]></title>
	<description><![CDATA[HiGlass is a tool for exploring genomic contact matrices and tracks. Please take a look at the examples and documentation for a description of the ways that it can be configured to explore and compare contact matrices. To load private data, HiGlass can be run locally within a Docker container. The HiC data in the examples below is from Rao et al. (2014)

http://higlass.io/<p>Address of the bookmark: <a href="http://higlass.io/" rel="nofollow">http://higlass.io/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/22040/karpagam-university-coimbatore-of-sr-prof-prof-associate-and-assistant-professors-karpagam-university-coimbatore-coimbatore-tamil-nadu</guid>
  <pubDate>Thu, 16 Apr 2015 00:30:45 -0500</pubDate>
  <link></link>
  <title><![CDATA[Karpagam University, Coimbatore, of Sr. Prof, Prof, Associate and Assistant Professors Karpagam University, Coimbatore - Coimbatore, Tamil Nadu]]></title>
  <description><![CDATA[
<p>Karpagam University, Coimbatore, Recruitment of Sr. Prof, Prof, Associate and Assistant Professors</p>

<p>Name of the College: Karpagam University, Coimbatore</p>

<p>Date of official publication: 15th April 2015</p>

<p>The newspaper wherein this job advertised: The Hindu Newspaper</p>

<p>Name of the posts: Senior Professors, Professors, Associate Professors and Assistant Professors</p>

<p>Departments:<br />Bioinformatics<br />Biotechnology<br />Qualifications/Eligibility: The candidates should have qualifications as M.E/M.Tech/M.A/M.Com/MBA/M.Sc/M.Phil/NET/SLET/Ph.D</p>

<p>Job Location: Coimbatore, TN</p>

<p>Salary: As per college norms</p>

<p>How to apply: Interested and eligible candidates are requested to apply online at http://www.karpagamuniversity.edu.in/career</p>

<p>Last date: As soon as possible from 15th April 2015</p>

<p>Reference: The Hindu Newspaper dated 15-04-2015, Coimbatore edition on 14th page</p>
]]></description>
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