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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/30111?offset=1630</link>
	<atom:link href="https://bioinformaticsonline.com/related/30111?offset=1630" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	
<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24463/project-fellow-at-indian-institute-of-chemical-biology-iicb</guid>
  <pubDate>Tue, 22 Sep 2015 23:47:35 -0500</pubDate>
  <link></link>
  <title><![CDATA[Project Fellow at Indian Institute of Chemical Biology (IICB)]]></title>
  <description><![CDATA[
<p>Advertisement No. : R&amp;C/CD/427/2015  ,Vacancy Code: 4271501    </p>

<p>Project Fellow Bioinformatics recruitment in Indian Institute of Chemical Biology (IICB) purely temporary </p>

<p>Name of the Project:  "Genomics and Informatics Solutions for Integrating Biology(Genesis)".     </p>

<p>No. of Vacancies: 1     </p>

<p>Qualification required : M.Sc in Bioinformatics with 55% Marks. </p>

<p>Experience (Desirable): Candidate should be well versed with sequencing data analysis,assembly and annotation of whole genome sequence. Experience in transcriptional data analysis is also preferred.</p>

<p>Age Limit : 28 Years   <br />  <br />Stipend : Rs.16000<br />How to apply<br />Interested candidates may appear for the walk-in-interview to be held on 28.09.2015 from 11.00 a.m. in the Red Carpet Room with the following documents self attested copy - (1) Matriculation Certificate in support of your date of birth, (2) Degree/Diploma Certificate, (3) Original reprints of all testimonials regarding educational qualification, (4) No Objection Certificate from the employer if employed, (5) Final Mark Sheet of M.Sc. Examination, (6) One Passport size photograph.</p>

<p>http://www.career.iicb.res.in/Recruitment%20Notice.php</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43828/understanding-hifi-reads</guid>
	<pubDate>Thu, 24 Mar 2022 19:48:11 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43828/understanding-hifi-reads</link>
	<title><![CDATA[Understanding HiFi Reads !]]></title>
	<description><![CDATA[<p><span>While little public data is available for either of the new synthetic long read approaches, Illumina showed an example comparison earlier this year at the&nbsp;</span><a href="https://www.festivalofgenomics.com/rami-mehio" target="_blank">Festival of Genomics &amp; Biodata conference</a><span>&nbsp;(FoG 2022). In the IGV screenshot presented (below), synthetic Infinity reads &ndash; labeled &ldquo;Longas&rdquo; &ndash; are at the top, followed by standard Illumina short reads, and PacBio HiFi reads labeled &ldquo;CCS&rdquo; depicted at the bottom:</span></p><p>Address of the bookmark: <a href="http://pacb.com/blog/the-hifi-difference-true-long-reads-vs-synthetic-long-reads/" rel="nofollow">http://pacb.com/blog/the-hifi-difference-true-long-reads-vs-synthetic-long-reads/</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24704/2-positions-on-the-evolutionary-analysis-of-biological-sequences-in-montpellier-france</guid>
  <pubDate>Mon, 28 Sep 2015 08:25:48 -0500</pubDate>
  <link></link>
  <title><![CDATA[2 positions on the evolutionary analysis of biological sequences in Montpellier - France]]></title>
  <description><![CDATA[
<p>The Methods and Algorithms for Bioinformatics (MAB) team at the LIRMM (computer science, robotics and microelectronics laboratory at the CNRS &amp; University of Montpellier, France) is looking for talented individuals to fill two postdoctoral positions.  We are seeking candidates with a strong background in computational evolutionary biology. The positions will start by the end of 2015.<br /> <br />The first of the positions (duration: 18-24 months), associated with the European VIROGENESIS project (http://www.kuleuven.be/english/research/EU/p/horizon2020/sc/sc1/Virogenesis), concerns the evolutionary analysis of viral sequences.  Topics include -- but are not limited to -- phylogenetic classification of metagenomic reads and the recombination history of viruses.<br /> <br />The second position (duration: 1 year), associated with the Institute for Computational Biology (IBC, http://www.ibc-montpellier.fr), concerns evolutionary analyses of large-scale genomic data -- including the inference of very large phylogenies, gene/species tree reconciliation, comparative genomics, phylogenetic network inference and verification, phylogeography, the use of phylogenies to study the evolution of characters.<br /> <br />A one thousand year old city, Montpellier is a thriving research community with a multitude of biology and biomedical research centers.  It is the fastest growing city in France where approximately one third of the population are students, and a wonderful location for outdoor activities (kite/wind surfing, sailing, river/sea kayaking, hiking and rock climbing).  The LIRMM is one of the most visible computer science laboratories in France.</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/42972/list-of-bioinformatics-workflow-management-tools</guid>
	<pubDate>Sat, 20 Mar 2021 00:15:25 -0500</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/42972/list-of-bioinformatics-workflow-management-tools</link>
	<title><![CDATA[List of bioinformatics workflow management tools !]]></title>
	<description><![CDATA[<h3>Here are list of&nbsp;Workflow Managers</h3><ul>
<li><span><a href="https://github.com/pcingola/BigDataScript">BigDataScript</a></span>&nbsp;&ndash; A cross-system scripting language for working with big data pipelines in computer systems of different sizes and capabilities. [&nbsp;<a href="https://pubmed.ncbi.nlm.nih.gov/25189778">paper-2014</a>&nbsp;|&nbsp;<a href="https://pcingola.github.io/BigDataScript">web</a>&nbsp;]</li>
<li><span><a href="https://github.com/ssadedin/bpipe">Bpipe</a></span>&nbsp;&ndash; A small language for defining pipeline stages and linking them together to make pipelines. [&nbsp;<a href="http://docs.bpipe.org/">web</a>&nbsp;]</li>
<li><span><a href="https://github.com/common-workflow-language/common-workflow-language">Common Workflow Language</a></span>&nbsp;&ndash; a specification for describing analysis workflows and tools that are portable and scalable across a variety of software and hardware environments, from workstations to cluster, cloud, and high performance computing (HPC) environments. [&nbsp;<a href="http://www.commonwl.org/">web</a>&nbsp;]</li>
<li><span><a href="https://github.com/broadinstitute/cromwell">Cromwell</a></span>&nbsp;&ndash; A Workflow Management System geared towards scientific workflows. [&nbsp;<a href="https://cromwell.readthedocs.io/">web</a>&nbsp;]</li>
<li><span><a href="https://github.com/galaxyproject">Galaxy</a></span>&nbsp;&ndash; a popular open-source, web-based platform for data intensive biomedical research. Has several features, from data analysis to workflow management to visualization tools. [&nbsp;<a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6030816">paper-2018</a>&nbsp;|&nbsp;<a href="https://galaxyproject.org/">web</a>&nbsp;]</li>
<li><span><a href="https://github.com/nextflow-io/nextflow">Nextflow</a>&nbsp;(recommended)</span>&nbsp;&ndash; A fluent DSL modelled around the UNIX pipe concept, that simplifies writing parallel and scalable pipelines in a portable manner. [&nbsp;<a href="https://pubmed.ncbi.nlm.nih.gov/29412134">paper-2018</a>&nbsp;|&nbsp;<a href="http://nextflow.io/">web</a>&nbsp;]</li>
<li><span><a href="https://github.com/cgat-developers/ruffus">Ruffus</a></span>&nbsp;&ndash; Computation Pipeline library for python widely used in science and bioinformatics. [&nbsp;<a href="https://pubmed.ncbi.nlm.nih.gov/20847218">paper-2010</a>&nbsp;|&nbsp;<a href="http://www.ruffus.org.uk/">web</a>&nbsp;]</li>
<li><span><a href="https://github.com/SeqWare/seqware">SeqWare</a></span>&nbsp;&ndash; Hadoop Oozie-based workflow system focused on genomics data analysis in cloud environments. [&nbsp;<a href="https://pubmed.ncbi.nlm.nih.gov/21210981">paper-2010</a>&nbsp;|&nbsp;<a href="https://seqware.github.io/">web</a>&nbsp;]</li>
<li><span><a href="https://bitbucket.org/snakemake">Snakemake</a></span>&nbsp;&ndash; A workflow management system in Python that aims to reduce the complexity of creating workflows by providing a fast and comfortable execution environment. [&nbsp;<a href="https://pubmed.ncbi.nlm.nih.gov/29788404">paper-2018</a>&nbsp;|&nbsp;<a href="https://snakemake.readthedocs.io/">web</a>&nbsp;]</li>
<li><span><a href="https://github.com/broadinstitute/wdl">Workflow Descriptor Language</a></span>&nbsp;&ndash; Workflow standard developed by the Broad. [&nbsp;<a href="https://software.broadinstitute.org/wdl">web</a>&nbsp;]</li>
</ul>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/25307/srfjrf-bioinformatics-at-iari</guid>
  <pubDate>Sun, 29 Nov 2015 03:00:44 -0600</pubDate>
  <link></link>
  <title><![CDATA[SRF/JRF Bioinformatics at IARI]]></title>
  <description><![CDATA[
<p>Agricultural Knowledge Management Unit</p>

<p>ICAR-INDIAN AGRICULTURAL RESEARCH INSTITUTE</p>

<p>L.B.S Building, Pusa Campus,</p>

<p>New Delhi-110012</p>

<p>Walk-in-Interview: 18th December 2015</p>

<p>DBT funded project: Distributed Information Centre under BTISnet (PI: Dr. A.K.Mishra)</p>

<p>Senior Research Fellow Two</p>

<p>    Rs 28000/- + HRA</p>

<p>    i) Master’s degree in Bioinformatics or Computer Science+ NET qualification and two years research experience, or</p>

<p>    ii) M. Tech degree in Bioinformatics or Computer Science /Engineering with two years research experience Efficiency to handle agricultural databases and bioinformatics tool development</p>

<p>#Junior Research Fellow</p>

<p>    Rs. 25000/- + HRA</p>

<p>    i) Master’s degree in Bioinformatics or Computer Science + NET qualification, or</p>

<p>    ii) M. Tech degree in Bioinformatics or Computer Science/Engineering Efficiency to handle agricultural databases and bioinformatics tool development</p>

<p>Traineeship Two</p>

<p>    Rs. 8000/- consolidated</p>

<p>    M.Sc./M. Tech (Bioinformatics) with 60 % marks from a recognized University</p>

<p>Studentship Four</p>

<p>    Rs. 8000/- consolidated</p>

<p>    Final year M.Sc./ M.Tech (Bioinformatics) Students from a recognized University</p>

<p>* M. Tech with Four Years Bachelor’s degree followed by Master’s degree</p>

<p># In case suitable person is not found for SRF position, it may be filled at the JRF level The interview will be held on 18 th December 2015 at 10:00 AM at AKMU, LBS Building, IARI, Pusa Campus, New Delhi-110012. Terms and Conditions:  Maximum age limit is 35 years for all positions. Age relaxation of 5 yrs for SC/ST/OBC and woman candidates will be given.  The above post is purely temporary and is co-terminus with the project. The candidate shall not claim for regular appointment.  No TA/DA will be paid for attending the interview.  Bring self attested copies and originals of all certificates ( class 10th )onwards along with biodata in the attached format, proof of date of birth, one passport size photo, NOC from present employer, if any  Canvassing in any form will disqualify the candidate. </p>

<p>Reporting time for interview: 9.30-10.00 AM at AKMU, IARI, New Delhi -110 012</p>

<p>Advertisement:</p>

<p>www.iari.res.in/files/SRF_JRF_Akkmu-27112015-20151127-124003.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38199/pacasus-correction-of-palindromes-in-long-reads-from-pacbio-and-nanopore</guid>
	<pubDate>Mon, 12 Nov 2018 05:26:48 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38199/pacasus-correction-of-palindromes-in-long-reads-from-pacbio-and-nanopore</link>
	<title><![CDATA[Pacasus: Correction of palindromes in long reads from PacBio and Nanopore]]></title>
	<description><![CDATA[<p><br>Tool for detecting and cleaning PacBio / Nanopore long reads after whole genome amplification. Check the poster from the Revolutionizing Next-Generation Sequencing (2nd edition) conference in the source folder:&nbsp;<a href="https://github.com/swarris/Pacasus/blob/master/vib2017.pdf">https://github.com/swarris/Pacasus/blob/master/vib2017.pdf</a>.</p>
<p>The prepint version is found on&nbsp;<a href="http://www.biorxiv.org/content/early/2017/08/09/173872">http://www.biorxiv.org/content/early/2017/08/09/173872</a></p>
<p>It uses the pyPaSWAS framework for sequence alignment (<a href="https://github.com/swarris/pyPaSWAS">https://github.com/swarris/pyPaSWAS</a>)</p><p>Address of the bookmark: <a href="https://github.com/swarris/Pacasus" rel="nofollow">https://github.com/swarris/Pacasus</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24962/ra-bioinformatics-at-nipgr</guid>
  <pubDate>Tue, 20 Oct 2015 04:11:56 -0500</pubDate>
  <link></link>
  <title><![CDATA[RA Bioinformatics at NIPGR]]></title>
  <description><![CDATA[
<p>Applications are invited from suitable candidates for filling up the purely temporary positions of one Research Associate (RA) and one Junior Research Fellow (JRF) in the DBT Part-B Sub-project-1&amp;2 entitled Transcriptome and epigenome diversity analysis during seed development for discovery of molecular markers and gene regulatory mechanism in chickpea of Seed Biology</p>

<p>Research Associate (one post): Emoluments as per DST/DBT norms &amp; as sanctioned in the project<br />Qualification: Candidates having Ph.D. degree (awarded) in Life Sciences/Molecular Biology/Bioinformatics or related field are eligible to apply.</p>

<p>Junior Research Fellow (one post): Emoluments as per DST/DBT norms &amp; as sanctioned in the project<br />Qualification: Candidates having M.Sc. degree or equivalent (with minimum 55% marks) in Life Sciences, Biotechnolgy, Bioinformatics, Molecular Biology or any other related field are eligible to apply</p>

<p>Additional Information</p>

<p>Address:<br />Staff Scientist<br />National Institute of Plant Genome Research (NIPGR)<br />Aruna Asaf Ali Marg, P.O. Box NO. 10531,<br />New Delhi - 110067</p>

<p>States &amp; U.T<br />State &amp; Union Territories Delhi</p>

<p>How To Apply</p>

<p>Apply Details<br />Eligible candidates may apply by sending their complete application in the given format. The attested copies of the certificates and proof of research experience (if any) are to be attached with the hard copy of application. The applications should reach at the address given below within 15 days from the date of advertisement.</p>

<p>Web/Notification URL<br />http://www.nipgr.res.in/careers/vacancie s_latest.php</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40544/ngs-bits-short-read-sequencing-tools</guid>
	<pubDate>Thu, 16 Jan 2020 23:14:00 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40544/ngs-bits-short-read-sequencing-tools</link>
	<title><![CDATA[ngs-bits - Short-read sequencing tools]]></title>
	<description><![CDATA[<p>Binaries of&nbsp;<em>ngs-bits</em>&nbsp;are available via Bioconda. Alternatively,&nbsp;<em>ngs-bits</em>&nbsp;can be built from sources:</p>
<ul>
<li><span>Binaries</span>&nbsp;for&nbsp;<a href="https://github.com/imgag/ngs-bits/blob/master/doc/install_bioconda.md">Linux/macOS</a></li>
<li>From&nbsp;<span>sources</span>&nbsp;for&nbsp;<a href="https://github.com/imgag/ngs-bits/blob/master/doc/install_unix.md">Linux/macOS</a></li>
<li>From&nbsp;<span>sources</span>&nbsp;for&nbsp;<a href="https://github.com/imgag/ngs-bits/blob/master/doc/install_win.md">Windows</a></li>
</ul><p>Address of the bookmark: <a href="https://github.com/imgag/ngs-bits" rel="nofollow">https://github.com/imgag/ngs-bits</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/25094/project-assistant-bioinformatics</guid>
  <pubDate>Mon, 02 Nov 2015 03:23:09 -0600</pubDate>
  <link></link>
  <title><![CDATA[Project Assistant BioInformatics]]></title>
  <description><![CDATA[
<p>Project Assistant BioInformatics</p>

<p>Eligibility : ME/M.Tech(Bio-Informatics/Bio-Chemistry Engg), MSc(Bio-Informatics), BE/B.Tech</p>

<p>Location : Pune</p>

<p>Last Date : 16 Nov 2015</p>

<p>Hiring Process : Face to Face Interview</p>

<p>No. Bio/NCIM/3 </p>

<p>Project Assistant II Jobs opportunity in National Chemical Laboratory (NCL) on temporary basis</p>

<p>Project Code No. : GAP312626</p>

<p>Title of the Project : Microbial ecology and distribution of geochemical cycling genes in an hot spring ecosystem</p>

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

<p>Qualifications : M.Sc./B.Tech/M.Tech in Computational biology/ Bioinformatics from recognized university with minimum 60 % marks (aggregate) </p>

<p>Desirable : Good knowledge of computational skills, Linux (command line and GUI) and Unix; Perl / Python / R /C-programming. Practical knowledge of analysis of Next generation sequence datasets (amplicon sequencing, whole metagenome, and complete genome sequencing) with reference to microbes. Analysis and statistical validation of NGS data generated from different chemistry platforms. Some wet-lab experience in microbial system would be an added advantage as project involves some travel.</p>

<p>Emoluments : Rs. 16,000/- </p>

<p>Age Limit : 28 years</p>

<p>The application with the above information duly signed together with photo-copies of relevant certificates/testimonials should be addressed to : The Head, NCIM Resource Centre (Attn Dr. M.S. DHARNE), National Chemical Laboratory, Pune 411 008, so as to reach on or before 16th November 2015.</p>

<p>More at http://www.ncl-india.org/files/JoinUs/JobVacancies/TemporaryJobs.aspx?menuid=ql6&amp;childmenustripid=divSubQL6</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/videolist/watch/2791/ncbi-psi-blast-tutorial</guid>
	<pubDate>Fri, 23 Aug 2013 02:25:02 -0500</pubDate>
	<link>https://bioinformaticsonline.com/videolist/watch/2791/ncbi-psi-blast-tutorial</link>
	<title><![CDATA[NCBI PSI-BLAST Tutorial]]></title>
	<description><![CDATA[<iframe width="" height="" src="https://www.youtube-nocookie.com/embed/T3kHEieyylk" frameborder="0" allowfullscreen></iframe>http:--www.biotechnology.jhu.edu-
Tutorial for PSI-BLAST, an extension of BLAST that uses matrix algebra. BLAST is a cornerstone bioinformatics tool at NCBI. BLAST is the
Basic Local Alignment Search tool and will protein and DNA sequences that
are related to a sequence that the user provides.]]></description>
	
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