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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/30234?offset=600</link>
	<atom:link href="https://bioinformaticsonline.com/related/30234?offset=600" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23278/research-associate-project-fellow-biological-sciences-at-igib</guid>
  <pubDate>Sun, 12 Jul 2015 07:57:27 -0500</pubDate>
  <link></link>
  <title><![CDATA[Research Associate, Project Fellow (Biological Sciences) at IGIB]]></title>
  <description><![CDATA[
<p>Research Associate, Project Fellow (Biological Sciences)<br />Institute of Genomics &amp; Integrative Biology (IGIB) - New Delhi, Delhi<br />Pay Scale: Rs. 22,000/- + 30 % HRA per month<br />Educational Requirements: PhD in any branch of Biological Sciences with specialization in Bioinformatics with at least one research paper in Science Citation Indexed (SCI) journal<br />Desired Skills: Knowledge of molecular dynamics simulations<br />Details will be available at: http://www.igib.res.in/sites/default/files/24July2015.pdf</p>

<p>Project Fellow (Biological Sciences) Pay Scale: Rs. 16,000/- + 30 % HRA per month<br />Educational Requirements: M.Sc./B.Tech in life sciences/Biological sciences with at least 55 % marks<br />Experience Requirements: Research experience.<br />Details will be available at: http://www.igib.res.in/sites/default/files/24July2015.pdf</p>

<p>No of Post: 01<br />How To Apply: 1. Please fill up the proforma by clicking on the following link HR Online Form. 2. Candidate cannot apply for more than two posts. Last date of receiving application is 12-07-2015. No application would be entertained with “result awaited” status or after due date. List of shortlisted candidates will be put up on CSIR-IGIB website. No TA/DA will be paid to the candidates to attend the interview. The engagement shall be as per guidelines of CSIR/Funding agency. Candidates will have an option to give reply in Hindi. Note: The shortlisted candidates, have to report at 09:00 AM at Mall Road Campus, Delhi – 110007 on the day of interview along with any Photo ID card, (without photo ID card interview will not be conducted). 3 copies of updated signed C. V. (clearly mentioning Date of Birth and Highest Qualification with percentage), Dissertation (if any), PhD thesis (if any) and original certificates/Self attested photocopies for verification.<br />Detail of Interview: 24 July, 2015 at 10:30 AM<br />Age Limit: 28 Years</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>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23378/ra-bioinformatics-at-bharathidasan-university</guid>
  <pubDate>Fri, 17 Jul 2015 19:40:45 -0500</pubDate>
  <link></link>
  <title><![CDATA[RA Bioinformatics at Bharathidasan University]]></title>
  <description><![CDATA[
<p>Applications are invited from individuals who have high motivation to do research for the DBT sponsored project o n “Establishment of National Repository for Microalgae &amp; Cyanobacteria” funded by Department of Biotechnology, Govt. of India under the supervision of Dr. N. Thajuddin, Principal Investigator, Department of Microbiology, Bharathidasan University, Tiruchirappalli- 620 024.</p>

<p>1. Research Associate – 1 No.</p>

<p>Rs. 36,000/38,000/40,000 per month for I, II and III year + 20% HRA</p>

<p>Essential : Doctoral degree in relevant subject from recognized University/ Institutes</p>

<p>Desirable: Research experience in molecular biology and bioinformatics.</p>

<p>Interested candidates can send their complete CV in plain paper with a passport size photograph, with details of marks secured in all subjects from plus two stage (with proof, full postal address, sex, date of birth, community etc., along with additional qualification or experiences and two address of references whom could be contacted.</p>

<p>DEPARTMENT OF MICROBIOLOGY SCHOOL OF LIFE SCIENCES UNIVERSITY Dr. N. THAJUDDIN Professor &amp; Head Dean, Faculty of Science, Technology &amp; Engineering Tiruchirappalli – 620 024, India, Phone: +91 431 2407082; Mobile +91 098423 79719; E-mail: nthaju2002@yahoo.com</p>

<p>Application should reach the Principal Investigator on or before 5.8.2015 by Speed post/Couriers/Email (nthaju2002@yahoo.com), with subject printed as “Application for Research Associate /Technical Assistant /Lab attendant” in the envelop. Qualifying candidates will be short listed and communicated with date of interview. No TA and DA will be given for attending the interview. Address for Communication Dr.N.Thajuddin Principal Investigator Department of Microbiology Bharathidasan University Tiruchirappalli – 620 024, Tamil Nadu.</p>

<p>Advertisement: www.bdu.ac.in/adv/microbiology_advt.pdf</p>
]]></description>
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	<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/23428/icgeb-bioinformatics-research-associate-vacancy</guid>
  <pubDate>Thu, 23 Jul 2015 19:45:16 -0500</pubDate>
  <link></link>
  <title><![CDATA[ICGEB Bioinformatics Research Associate Vacancy]]></title>
  <description><![CDATA[
<p>Junior Research Fellow (JRF) / Postdoc positions in Cell and Structural biology at ICGEB, New Delhi with Amit Sharma</p>

<p>Research positions are open starting 15th August 2015.</p>

<p>Projects are specifically for protein structure analysis. Projects also involve drug binding studies both computationally and experimentally.</p>

<p>CSIR/SPM/INSPIRE/DBT/UGC JRF/post-doc fellowships are essential for applications.</p>

<p>Email curriculum vitae to sb.icgeb@gmail.com by 14 August 2015</p>
]]></description>
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	<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>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23578/srf-post-in-nehu-shillong</guid>
  <pubDate>Tue, 04 Aug 2015 03:17:05 -0500</pubDate>
  <link></link>
  <title><![CDATA[SRF post in NEHU, Shillong]]></title>
  <description><![CDATA[
<p>Bioinformatics Centre (DIC)<br />NORTH-EASTERN HILL UNIVERSITY<br />SHILLONG 793022</p>

<p>Applications with complete bio-data from candidates possessing the required qualifications are invited for the posts of JRF (1) and Project Assistant (1) in DBT, GOI-funded research project “Next Generation Sequencing (NGS)- based de novo assembly of expressed transcripts and genome information of Orchids in North-East India” in DBT’s Twinning programme for NE as per DBT sanction order and norms.</p>

<p>(i) JRF(1 no.):</p>

<p>Qualifications: M.Tech/M.Sc in Life Sciences/ Botany/ Zoology/ Biochemistry/ Biotechnology/ Bioinformatics;</p>

<p>Desirable: Aptitude for Bioinformatics and Computer Programming/ Next generation sequencing data analysis</p>

<p>(ii) Project Assistant (1 no.):</p>

<p>Qualifications: Graduation in Science,</p>

<p>Desirable: Experience of working in a Life Science/Plant Biotechnology lab. and familiarity with computers and field work viz. collection of samples.</p>

<p>The applications through email bicnehu@gmail.com or post must reach the undersigned within 15 days from the date of publication of this advertisement. The advertised posts are purely temporary for the duration of the project and subject to availability of the funds from DBT. The appointment does not confer any entitlement or right over the posts for absorption in the University service. Prof. Pramod Tandon, PI/Mr. Devendra Kumar Biswal (Co-PI) email: bicnehu@gmail.com</p>

<p>Advertisement: www.nehu.ac.in/Advertisements/BIC_AdvtPV_030815.pdf</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34579/moss-a-system-for-detecting-software-similarity</guid>
	<pubDate>Sat, 09 Dec 2017 08:59:07 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34579/moss-a-system-for-detecting-software-similarity</link>
	<title><![CDATA[MOSS: A System for Detecting Software Similarity]]></title>
	<description><![CDATA[<p><span>Moss (for a Measure Of Software Similarity) is an automatic system for determining the similarity of programs. To date, the main application of Moss has been in detecting plagiarism in programming classes. Since its development in 1994, Moss has been very effective in this role. The algorithm behind moss is a significant improvement over other cheating detection algorithms (at least, over those known to us).</span></p>
<p><span><span>Moss can currently analyze code written in the following languages:</span></span></p>
<p>C, C++, Java, C#, Python, Visual Basic, Javascript, FORTRAN, ML, Haskell, Lisp, Scheme, Pascal, Modula2, Ada, Perl, TCL, Matlab, VHDL, Verilog, Spice, MIPS assembly, a8086 assembly, a8086 assembly, MIPS assembly, HCL2.</p><p>Address of the bookmark: <a href="https://theory.stanford.edu/~aiken/moss/" rel="nofollow">https://theory.stanford.edu/~aiken/moss/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23782/bioinformatics-openings-at-jnu</guid>
  <pubDate>Sun, 16 Aug 2015 01:03:11 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics openings at JNU]]></title>
  <description><![CDATA[
<p>School of Biotechnology<br />JAWAHARLAL NEHRU UNIVERSITY<br />NEW DELHI</p>

<p>Jawaharlal Nehru University has been granted funds by the Department of Biotechnology (DBT), Govt. of India to initiate an Inter-School programme in JNU to strengthen training and research called "DBT-Jawaharlal Nehru University, New Delhi-Interdisciplinary Life Science Programme for Advanced Research and education" with the broad project area entitled "From Molecules to Systems: Exploring biological space using chemical and synthetic biology" cutting across Physical, Chemical and Biological Sciences.</p>

<p>Applications are invited for the following purely temporary posts at various levels in the various Group projects for Research and Technical positions. The project is upto March 2017, but the appointments shall be initially for a period of one year, renewable every year depending on the performance of project staff:</p>

<p>Project Sub-Title: Synthetic Genomics: Making sense out of 'junk' DNA</p>

<p>Senior Research Fellow (SRF) - 01 Post</p>

<p>Qualifications: M.Sc in Bioinformatics, with minimum 2 year research experience, specialization in microRNA, molecular modelling, systems and/or Synthetic biology with publication in the relevant area would be desirable.</p>

<p>Investigator: Prof. Pawan Kumar Dhar</p>

<p>Fellowship: Rs. 14000+30% HRA p.m.</p>

<p>Project Sub-Title: "Structure, function, and dynamics of biomolecules and Molecular engineering"</p>

<p>Postdoctoral Fellow (PDF) - 01 Post</p>

<p>Essential Qualifications: PhD in Science(Bioinformatics/Computational Biology, Physics, Chemistry, Mathematics, &amp; Statistics), specialized in the area of Computational Biology/Structural Bioinformatics/ Quantum Chemistry/Molecular Dynamics &amp; Simulation /Systems Biology , reflected by thesis topics and or publication of papers during PhD and/or Post doctoral experience.</p>

<p>Desirable Qualifications: Computational methods and designing experience in the field of Structure based or ligand based drug design, Chemoinformatics, Programming capabilities as required for developing tools in the computational &amp; systems Biology.</p>

<p>Investigator: Prof. Indira Ghosh, SCIS</p>

<p>Salary: Rs. 22, 000 + 30% HRA</p>

<p>(Note: Revised emoluments shall be payable if Educational Qualifications or Eligibility Criteria as per DST OM No. A.20020/11/97-IFD dated 31-03-2010 are met by the research personnel)</p>

<p>The applications on plain paper indicating name, date of birth/age, address, essential / technical / professional qualifications, experience, research work, should reach the Programme Coordinator on or before 27th August 2015 at the following address:</p>

<p>The Envelop should be marked for the Post applied for. Any clarifications regarding projects may be sought from the respective project investigators as mentioned.</p>

<p>Address for correspondence:<br />Programme Coordinator<br />DBT-JNU BUILDER programme<br />School of Biotechnology<br />Jawaharlal Nehru University<br />New Delhi 110067</p>

<p>More at http://www.jnu.ac.in/career/currentjobs.htm</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/39872/miropeats-discovers-regions-of-sequence-similarity-amongst-any-set-of-dna-sequences</guid>
	<pubDate>Mon, 26 Aug 2019 17:55:24 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39872/miropeats-discovers-regions-of-sequence-similarity-amongst-any-set-of-dna-sequences</link>
	<title><![CDATA[Miropeats: discovers regions of sequence similarity amongst any set of DNA sequences]]></title>
	<description><![CDATA[<p><span>Miropeats discovers regions of sequence similarity amongst any set of DNA sequences and then presents this similarity information graphically. Sequence similarity searching is a very general tool that forms the basis of many different biological sequence analyses but it is limited by the verbosity of traditional alignment presentation styles. Miropeats enhances the utility of conventional DNA sequence comparisons when looking at long lengths of sequence similarity by summarizing extensive large scale sequence similarities on a single page of graphics. The latest version of Miropeats can be used as a general pairwise alignment program or in its traditional role sorting out a big mess of overlapping or similar regions.</span></p><p>Address of the bookmark: <a href="http://www.littlest.co.uk/software/bioinf/old_packages/miropeats/" rel="nofollow">http://www.littlest.co.uk/software/bioinf/old_packages/miropeats/</a></p>]]></description>
	<dc:creator>Poonam Mahapatra</dc:creator>
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