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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/44352?offset=700</link>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/29578/plink2</guid>
	<pubDate>Thu, 27 Oct 2016 11:24:45 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/29578/plink2</link>
	<title><![CDATA[PLINK2]]></title>
	<description><![CDATA[<p><span>This is a comprehensive update to Shaun Purcell's&nbsp;</span><a href="http://pngu.mgh.harvard.edu/~purcell/plink/">PLINK</a><span>&nbsp;command-line program, developed by&nbsp;</span><a href="mailto:chrchang@alumni.caltech.edu">Christopher Chang</a><span>&nbsp;with support from the&nbsp;</span><a href="http://www.niddk.nih.gov/">NIH-NIDDK</a><span>'s Laboratory of Biological Modeling, the&nbsp;</span><a href="http://research.mssm.edu/statgen/">Purcell Lab</a><span>&nbsp;at Mount Sinai School of Medicine, and others. (</span><a href="https://www.cog-genomics.org/plink2/#new">What's new?</a><span>) (</span><a href="https://www.cog-genomics.org/plink2/credits">Credits.</a><span>) (</span><a href="http://www.gigasciencejournal.com/content/4/1/7">Methods paper.</a><span>)</span></p><p>Address of the bookmark: <a href="https://www.cog-genomics.org/plink2/" rel="nofollow">https://www.cog-genomics.org/plink2/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/file/view/29601/statistics-using-r-with-biological-examples</guid>
	<pubDate>Thu, 03 Nov 2016 04:55:41 -0500</pubDate>
	<link>https://bioinformaticsonline.com/file/view/29601/statistics-using-r-with-biological-examples</link>
	<title><![CDATA[Statistics Using R   with Biological Examples]]></title>
	<description><![CDATA[<p>This book is a manifestation of my desire to teach researchers in biology a bit more about statistics than an ordinary introductory course covers and to introduce the utilization of R as a tool for analyzing their data. My goal is to reach those with little or no training in higher level statistics so that they can do more of their own data analysis, communicate more with statisticians, and appreciate the great potential statistics has to offer as a tool to answer biological questions. </p><p>This is necessary in light of the increasing use of higher level statistics in biomedical research. I hope it accomplishes this mission and encourage its free distribution and use as a course text or supplement.</p><p>K Seefeld, May 2007</p>]]></description>
	<dc:creator>Neel</dc:creator>
	<enclosure url="https://bioinformaticsonline.com/file/download/29601" length="4581031" type="application/pdf" />
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41501/hicanu-accurate-assembly-of-segmental-duplications-satellites-and-allelic-variants-from-high-fidelity-long-reads</guid>
	<pubDate>Fri, 27 Mar 2020 22:49:31 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41501/hicanu-accurate-assembly-of-segmental-duplications-satellites-and-allelic-variants-from-high-fidelity-long-reads</link>
	<title><![CDATA[HiCanu: accurate assembly of segmental duplications, satellites, and allelic variants from high-fidelity long reads]]></title>
	<description><![CDATA[<p><span>HiCanu, a significant modification of the Canu assembler designed to leverage the full potential of HiFi reads via homopolymer compression, overlap-based error correction, and aggressive false overlap filtering.&nbsp;</span></p>
<p>More at&nbsp;<a href="https://www.biorxiv.org/content/10.1101/2020.03.14.992248v3?fbclid=IwAR2PaN4GLjvAZpWmCE2q0EWk2dtwY7wiKxVlXn9PPG7OBSP06PP2gcCrv3A">https://www.biorxiv.org/content/10.1101/2020.03.14.992248v3</a></p><p>Address of the bookmark: <a href="https://github.com/marbl/canu" rel="nofollow">https://github.com/marbl/canu</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/29624/information-officer-at-iiar-gujarat</guid>
  <pubDate>Fri, 04 Nov 2016 05:19:13 -0500</pubDate>
  <link></link>
  <title><![CDATA[Information Officer at IIAR, Gujarat]]></title>
  <description><![CDATA[
<p>Walk in interview at 10.30 am on Nov 11th, 2016 for the following position at Distributed Information Sub-Centre (DISC) established by Dept. Of Biotechnology, Govt. of India at Indian Institute of Advanced Research, Gandhinagar, Gujarat</p>

<p>Position (scale), qualifications and experience</p>

<p>1. Information Officer (Rs 8000-275-13500): one post <br />Qualifications and experience: MCA, Post-Graduate in any field of biosciences, bioinformatics with at least two years of experience in working in a bioinformatics setup and good knowledge of linux operating system and computer networking.</p>

<p>General terms and conditions: <br />1. The above engagements is presently till March 31st, 2017. However on extension of project grant and satisfactory performance of the candidate, your services can be extended beyond March 31st, 2017 based on the terms and conditions of extension of project grant.</p>

<p>2. It is not an appointment with the institute and will not confer any right to the incumbent to any claim implicit or explicit on any position.</p>

<p>3.No TA/DA will be paid for attending the interview. Outstation candidates have to make their own arrangement for their stay.</p>

<p>4.Candidates, appearing in the walk-in interview are requested to bring the hard copy of application addressed to Dr. Anju Pappachan with latest photograph, CV mentioning qualifications, work experience and name of two referees and one page write up as to why you would like to join the project.</p>

<p>Address: <br />Dr. Anju Pappachan <br />Indian Institute of Advanced Research (IIAR), <br />University  and Institute of Advanced Research, <br />The Puri Foundation for Education in India, <br />Koba Institutional Area, <br />Gandhinagar- 382 007, Gujarat, India. Contact no. 079-30514152 <br />e-mail- anju@iiar.res.in</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41734/supernova-generates-phased-whole-genome-de-novo-assemblies-from-a-chromium-prepared-library</guid>
	<pubDate>Sun, 31 May 2020 01:59:30 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41734/supernova-generates-phased-whole-genome-de-novo-assemblies-from-a-chromium-prepared-library</link>
	<title><![CDATA[Supernova: generates phased, whole-genome de novo assemblies from a Chromium-prepared library.]]></title>
	<description><![CDATA[<p>Supernova generates phased, whole-genome&nbsp;<em>de novo</em>&nbsp;assemblies from a Chromium-prepared library.</p>
<p>Please see&nbsp;<a href="https://support.10xgenomics.com/de-novo-assembly/guidance/doc/achieving-success-with-de-novo-assembly">Achieving Success with De Novo Assembly</a>&nbsp;and&nbsp;<a href="https://support.10xgenomics.com/de-novo-assembly/software/overview/system-requirements">System Requirements</a>&nbsp;<em>before</em>&nbsp;creating your Chromium libraries for assembly.</p>
<p>Supernova should be run using 38-56x coverage of the genome.<br>&bull; Somewhat higher coverage is&nbsp;<em>sometimes</em>&nbsp;advantageous.<br>&bull; Supernova will exit if it finds that coverage is far from the recommended range.<br>&bull; Note that at most 2.14 billion reads are allowed.<br>&bull; Please note that we have not extensively tested genomes larger than human, and any genome above approximately 4 GB should be considered experimental and is not supported.</p><p>Address of the bookmark: <a href="https://support.10xgenomics.com/de-novo-assembly/software/pipelines/latest/using/running" rel="nofollow">https://support.10xgenomics.com/de-novo-assembly/software/pipelines/latest/using/running</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/29644/junior-research-fellow-at-rajiv-gandhi-centre-for-biotechnology-thiruvananthapuram</guid>
  <pubDate>Mon, 07 Nov 2016 10:27:06 -0600</pubDate>
  <link></link>
  <title><![CDATA[Junior Research Fellow at Rajiv Gandhi Centre for Biotechnology, Thiruvananthapuram]]></title>
  <description><![CDATA[
<p>Adv. # 22/ 2016<br />Applications are invited from suitable candidates for one position of Junior Research Fellow in a DST funded bioinformatics research project entitled "Major gene influxes in microbial genome evolution" in the Laboratory of Dr. Shijulal Nelson-Sathi at Rajiv Gandhi Centre for Biotechnology, Thiruvananthapuram.</p>

<p>ESSENTIAL QUALIFICATIONS:<br />We are looking for a motivated candidate with keen interest in bioinformatics and microbial genome evolution. The candidate must have a Master’s Degree in Bioinformatics, Computational Biology, Computer Science, Microbiology, Biology or a related field with good academic record.</p>

<p>DESIRABLE QUALIFICATIONS<br />Hands on research experience on handling next generation sequencing data and phylogenetic reconstruction methods. Excellent programming skills (Perl/Python/Java/Php) and experience in working on Unix/Linux platform is preferred. Furthermore; good knowledge is required in statistics (R/Matlab) and the application of bioinformatics analysis tools.</p>

<p>AGE:<br />Below 28 years as on 15th November, 2016.</p>

<p>EMOLUMENTS:<br />Rs. 25,000 + 20% HRA for NET/GATE qualified and Post Graduate in Professional Degree course qualified candidates and <br />Rs. 12,000/- + 20% HRA for others.</p>

<p>DURATION:<br />Initial appointment will be given for one year and further extension will be based on the performance till termination of the project.<br />Only those fulfilling the above criteria need apply and will be called for interview. In the event of more than 10 candidates being short-listed by screening the applications, a written test will be conducted before the selection interview and only those who are successful in the written test will be interviewed. No TA/ DA will be given for appearing in the interview.</p>

<p>Suitably qualified candidates may send applications in the prescribed format (Download here) with a photograph, a copy of full resume indicating the percentage of Marks obtained and attested photocopies of credentials &amp; experience to reach the undersigned on or before 15th November, 2016. Envelopes must be superscripted with abbreviated title of the project, advertisement number and job title. Selection to the position will not entitle the candidate to any future positions at RGCB (permanent or otherwise). As with all project positions at RGCB, the position will be co terminus with end of the project.</p>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/29658/bookmarks-biostatistics-materials-and-books</guid>
	<pubDate>Tue, 08 Nov 2016 07:42:42 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/29658/bookmarks-biostatistics-materials-and-books</link>
	<title><![CDATA[Bookmarks Biostatistics materials and books]]></title>
	<description><![CDATA[<p>Biostatistics did not spring fully formed from the brow of R. A. Fisher, but evolved over many years. This process is continuing, although it may not be obvious from the outside. It has been ten years since the first edition of this book appeared (and rather longer since it was begun). Over this time, new areas of biostatistics have been developed and emphases and interpretations have changed</p>
<p>Please bookmarks your favourate biostatistics&nbsp;books in commend sectons ...</p><p>Address of the bookmark: <a href="http://www.cos.ufrj.br/~bioestatistica/livros/Introduction%20to%20Biostatistics.pdf" rel="nofollow">http://www.cos.ufrj.br/~bioestatistica/livros/Introduction%20to%20Biostatistics.pdf</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/29842/research-assistant-bioinformatics-recruitment-in-national-institute-of-cancer-prevention-research-icmr-on-contract-basis</guid>
  <pubDate>Tue, 15 Nov 2016 17:15:48 -0600</pubDate>
  <link></link>
  <title><![CDATA[Research Assistant Bioinformatics recruitment in National Institute Of Cancer Prevention &amp; Research (ICMR) on Contract basis]]></title>
  <description><![CDATA[
<p>National Institute Of Cancer Prevention &amp; Research - ICMR</p>

<p>Research Assistant Bioinformatics recruitment in National Institute Of Cancer Prevention &amp; Research (ICMR) on Contract basis <br />Project entitled: “Next generation EGFR inhibitor identification using ligand based QSAR technique” </p>

<p>Essential: M.Sc. in Bioinformatics or related field. Desirable: Experience in QSAR and structure based drug designing.<br />Age: 28 years<br />No.of Post: 1</p>

<p>Pay Scale : Rs.27000</p>

<p>Application format is attached and should be sent by post to Dr. Subhash M Agarwal, Scientist D, Division of Bioinformatics, National Institute of Cancer Prevention &amp; Research (ICMR), Plot No. I-7, Sector-39, Noida 201301 (U.P).</p>

<p>More at http://www.icmr.nic.in/icmrnews/NICPR_Advertisement%20for%20RA.pdf</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43926/aun-a-new-metric-to-measure-assembly-contiguity</guid>
	<pubDate>Tue, 02 Aug 2022 01:18:47 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43926/aun-a-new-metric-to-measure-assembly-contiguity</link>
	<title><![CDATA[auN: a new metric to measure assembly contiguity]]></title>
	<description><![CDATA[<p><span>Given a de novo assembly, we often measure the &ldquo;average&rdquo; contig length by N50.&nbsp;</span><a href="https://en.wikipedia.org/wiki/N50,_L50,_and_related_statistics">N50</a><span>&nbsp;is neither the real average nor median. It is the length of the contig such that this and longer contigs cover at least 50% of the assembly. A longer N50 indicates better contiguity. We can similarly define N</span><em>x</em><span>&nbsp;such that contigs no shorter than N</span><em>x</em><span>&nbsp;covers&nbsp;</span><em>x</em><span>% of the assembly. The N</span><em>x</em><span>&nbsp;curve plots N</span><em>x</em><span>&nbsp;as a function of&nbsp;</span><em>x</em><span>, where&nbsp;</span><em>x</em><span>&nbsp;is ranged from 0 to 100.</span></p>
<p><span><img src="http://lh3.github.io/images/NGx_plot.png" alt="image" style="border: 0px;"></span></p><p>Address of the bookmark: <a href="https://lh3.github.io/2020/04/08/a-new-metric-on-assembly-contiguity" rel="nofollow">https://lh3.github.io/2020/04/08/a-new-metric-on-assembly-contiguity</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/29998/csir-nehru-science-postdoctoral-research-fellowship</guid>
  <pubDate>Tue, 29 Nov 2016 12:34:59 -0600</pubDate>
  <link></link>
  <title><![CDATA[CSIR Nehru Science Postdoctoral Research Fellowship]]></title>
  <description><![CDATA[
<p>CSIR Nehru Science Postdoctoral Research Fellowship</p>

<p>About Fellowship: <br />CSIR Nehru Science Postdoctoral Research Fellowship Scheme is an Research Fellowship awarded/given by HRD Ministry, Govt. of India every year to more than 100 fellows.</p>

<p>It was started to identify promising and young researchers with novel ideas and provide them research opportunities in the areas of basic science, engineering, medicine &amp; agriculture.</p>

<p>The fellowship aims at facilitating their transition from mentored to independent research career.</p>

<p>In addition, check these ICTS Research Fellowships:<br />1.) Max-Planck Partner Group Fellowships 2017-18<br />2.) ICTS-Simons Postdoctoral Fellowships 2017<br />3.) ICTS Post Doctoral Fellowships 2017<br />4.) Airbus Prize Postdoctoral Fellowship 2017-18</p>

<p>Eligibility: To be eligible for this fellowship, you:<br />1.) PhD degree (within 3 years of award of PhD degree), OR<br />2.) Those who have submitted PhD theses.<br />3.) Applicants should have research publications in good impact factor SCI journals.<br />4.) Indian nationals, Persons of Indian Origin (PIO) &amp; Overseas Citizen of India (OCI), a can also apply.<br />5.) Maximum Age Limit: 32 years.</p>

<p>Duration: <br />– 2 Years.<br />– extendable for a maximum of 1 more year based on performance.</p>

<p>Remuneration: <br />– Rs. 50,000/- per month plus House Rent Allowance (HRA)<br />– A contingency grant of Rs. 3.0 lakh per annum.<br />– 25% of the contingency grant can be used for domestic and international travel.</p>

<p>Mode of Selection: You can apply throughout the year, but selection will be made twice a year, in June and December.</p>

<p>How to Apply: <br />– Read the instructions, given at Annexure-I in this PDF file.<br />– And, application form is given as, Annexure-II.<br />– Fill the form &amp; send it to the given address in the PDF file.</p>

<p>Deadline: Rolling Deadline (Applications accepted throughout the year)</p>

<p>Also See: Research Internship/ Fellowship in India:<br />1.) IIT Bombay Research Internship Awards Programme 2016-17<br />2.) IIT Delhi Internship Program 2016-17<br />3.) DAAD WISE – International Internship in Germany<br />4.) Summer Research Fellowship Programme| JNCASR Bangalore<br />5.) Indian Academy of Sciences Summer Internships 2017<br />6.) Winter Internship – IIT Bombay NPDE-TCA<br />7.) Viterbi – India Program 2017 | Research Internship in US<br />8.) Internship – Centre for Stem Cell Research, Vellore</p>

<p>Accommodation &amp; other benefits: <br />– Accommodation may be provided by CSIR, if available.<br />– Medical benefits as per CSIR norms.</p>

<p>For more details: <br />– Check this PDF Notification of Fellowship.<br />– List of CSIR Labs &amp; their work/activities can be seen at www.csir.res.in.</p>
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