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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/31018?offset=380</link>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/14904/bioinformatics-jrfsrf-position-at-iari</guid>
  <pubDate>Thu, 04 Sep 2014 04:14:01 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics JRF/SRF position at IARI]]></title>
  <description><![CDATA[
<p>DIVISION OF NEMATOLOGY<br />INDIAN AGRICULTURAL RESEARCH INSTITUTE<br />NEW DELHI 110012<br />Applications are invited for the posts of one Junior<br />Research Fellow and one RA in the DBT funded project entitled “ Plant parasitic nematode genome informatics - insilico resource development”. The project is for a period of three years. </p>

<p>Essential qualifications for JRF<br />: M. Sc. in Bioinformatics with experience in Proteomics, genomics and structural biology. Knowledge of programming language, pearl and database – HTML, CSS,php and Java script.<br />Essential qualifications for Research Associate:<br />MSc/MTech in Bioinformatics with three years experience or Ph.D in Bioinformatics with experience in proteomics, genomics and structural biology. Knowledge of programming language, perl and database<br />– HTML, CSS, Java script. NGS sequence assembly and analysis and algorithm designing.<br />Age limit : 35 years maximum (5 year relaxation for SC/ST and women candidates)<br />Emoluments:<br />JRF: 16,000 + 30% HRA<br />.<br />Res Assoc: Rs22,000 + 30% HRA<br />The post is purely temporary in nature and is co-terminus with the project. The appointment would be initially for one year and may be extended further upon satisfactory performance.<br />Interested candidates<br />should send the duly filled application forms (format in the following page ) so as to reach on or before 20.9.2014 along with all the relevant documents.</p>

<p>More at http://www.iari.res.in/files/JRF_RA-03092014-20140903-135319.pdf</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40792/haslr-a-tool-for-rapid-genome-assembly-of-long-sequencing-reads</guid>
	<pubDate>Fri, 31 Jan 2020 05:50:15 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40792/haslr-a-tool-for-rapid-genome-assembly-of-long-sequencing-reads</link>
	<title><![CDATA[HASLR: a tool for rapid genome assembly of long sequencing reads]]></title>
	<description><![CDATA[<p><span>HASLR is a tool for rapid genome assembly of long sequencing reads. HASLR is a hybrid tool which means it requires long reads generated by Third Generation Sequencing technologies (such as PacBio or Oxford Nanopore) together with Next Generation Sequencing reads (such as Illumina) from the same sample.&nbsp;</span></p><p>Address of the bookmark: <a href="https://github.com/vpc-ccg/haslr" rel="nofollow">https://github.com/vpc-ccg/haslr</a></p>]]></description>
	<dc:creator>LEGE</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41275/shinychromosomea-gui-for-the-interactive-creation-of-non-circular-whole-genome-diagrams</guid>
	<pubDate>Sat, 29 Feb 2020 00:39:50 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41275/shinychromosomea-gui-for-the-interactive-creation-of-non-circular-whole-genome-diagrams</link>
	<title><![CDATA[shinyChromosome:a GUI for the interactive creation of non-circular whole genome diagrams]]></title>
	<description><![CDATA[<p><code>shinyChromosome</code> is a graphical user interface for interactive creation of non-circular whole genome diagrams developed using the R <strong>Shiny</strong> package.</p>
<p>To create single-genome plot by aligning genome data along all chromosomes of a single genome, go to the <code>Single-genome plot</code> menu.</p>
<p>To cretae two-genome plot for comparison of data across two genomes, go to the <code>Two-genome plot</code> menu.</p>
<p>For the detail format of input data, check the <code>Input data format</code> submenu of the <code>Help</code> menu.</p>
<p>shinyChromosome is deployed at <a href="http://150.109.59.144:3838/shinyChromosome/" target="_blank">http://150.109.59.144:3838/shinyChromosome/</a>, <a href="http://shinyChromosome.ncpgr.cn" target="_blank">http://shinyChromosome.ncpgr.cn</a>, and <a href="https://yimingyu.shinyapps.io/shinyChromosome" target="_blank">https://yimingyu.shinyapps.io/shinyChromosome</a> for online use. The source code and manual of shinyChromosome are freely available at <a href="https://github.com/venyao/shinyChromosome" target="_blank">https://github.com/venyao/shinyChromosome</a>.</p>
<p>https://yimingyu.shinyapps.io/shinychromosome/</p>
<p>https://www.sciencedirect.com/science/article/pii/S1672022919301883</p><p>Address of the bookmark: <a href="https://yimingyu.shinyapps.io/shinychromosome/" rel="nofollow">https://yimingyu.shinyapps.io/shinychromosome/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/17186/urdip-pune-bioinformatics-srfpa-openings</guid>
  <pubDate>Sat, 20 Sep 2014 20:48:50 -0500</pubDate>
  <link></link>
  <title><![CDATA[URDIP Pune Bioinformatics SRF/PA Openings]]></title>
  <description><![CDATA[
<p>CSIR UNIT FOR RESEARCH AND DEVELOPMENT OF INFORMATION PRODUCTS<br />NCL Campus, S.No.113,114, Pashan, Pune 411 008</p>

<p>ADVERTISEMENT NO. - URDIP/ 5/2014</p>

<p>Learning opportunity for young Science and Engineering professionals to make a career in Information Science Industry CSIR has set up a Unit for Research and Development of Information Products (CSIR-URDIP) at Pune to work in the area of Scientific Informatics (ChemBioinformatics/Patent Informatics/Phytoinformatics/Toxinformatics) and related<br />software development projects.</p>

<p>Applications are invited from CSIR - UGC NET Qualified Candidates for consideration as Project Fellow (PF) and/or Senior Project Fellow (SPF) based on the experience to work on existing and new projects at CSIRURDIP.</p>

<p>Project Fellow</p>

<p>    Remuneration - (Rs. 16,000.00 + 20% HRA)</p>

<p>    M. Sc. In Biochemistry/Microbiology/Bioinformatics [Post-code A02] only with minimum of 55% marks</p>

<p>Senior Project Fellow</p>

<p>    Remuneration - (Rs. 18,000.00 + 20% HRA)</p>

<p>    M. Sc. in Biochemistry/Microbiology/Bioinformatics [Post-code A05] only with minimum of 55% marks plus two years research or relevant informatics experience</p>

<p>Please visit www.urdip.res.in/career.htm to apply online by 30th September, 2014.</p>

<p>Successful candidates who have appeared for NET exam in 2012 and 2013 are only eligible to apply.</p>

<p>Advertisement: http://115.112.95.114/urhr/download/Advt5_2014.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41493/coronavirus-resources</guid>
	<pubDate>Wed, 25 Mar 2020 17:11:33 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41493/coronavirus-resources</link>
	<title><![CDATA[Coronavirus Resources !]]></title>
	<description><![CDATA[<p><span>2019nCoVR features comprehensive integration of genomic and proteomic sequences as well as their metadata information from the GISAID, NCBI, NMDC and CNCB/NGDC. It also incorporates a wide range of relevant information including scientific literatures, news, and popular articles for science dissemination, and provides visualization functionalities for genome variation analysis results based on all collected 2019-nCoV strains.</span></p>
<p><span>Annotation</span></p>
<p><span><a href="https://bigd.big.ac.cn/ncov/variation/annotation">https://bigd.big.ac.cn/ncov/variation/annotation</a></span></p>
<p><span>Genome wharehouse&nbsp;</span></p>
<p><span><a href="https://bigd.big.ac.cn/gwh/browse/index">https://bigd.big.ac.cn/gwh/browse/index</a></span></p>
<p>Released Genome</p>
<p><a href="https://bigd.big.ac.cn/ncov/release_genome">https://bigd.big.ac.cn/ncov/release_genome</a></p>
<p>Download data&nbsp;</p>
<p><a href="ftp://download.big.ac.cn/Genome/Viruses/Coronaviridae/">ftp://download.big.ac.cn/Genome/Viruses/Coronaviridae/</a></p>
<p>Raw data</p>
<p><a href="https://bigd.big.ac.cn/gsa/browse/run/?tag=Coronaviridae">https://bigd.big.ac.cn/gsa/browse/run/?tag=Coronaviridae</a></p><p>Address of the bookmark: <a href="https://bigd.big.ac.cn/ncov/about" rel="nofollow">https://bigd.big.ac.cn/ncov/about</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/17189/bioinformatics-svims-project-assistant-walk-in</guid>
  <pubDate>Sat, 20 Sep 2014 21:02:29 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics SVIMS Project Assistant Walk IN]]></title>
  <description><![CDATA[
<p>SRI VENKATESWARA INSTITUTE OF MEDICAL SCIENCES<br />TIRUPATI, ANDHRA PRADESH, INDIA- 517 507<br />BIOINFORMATICS CENTRE, DEPARTMENT OF BIOINFORMATICS</p>

<p>Eligible candidates are invited for a walk-in-interview for recruitment of Project Assistant in SVIMS Bioinformatics centre under the BTISnet Project entitled “Creation of Bioinformatics Infrastructure Facility for promotion of Biology teaching through Bioinformatics” on 25.09.2014 at 11 AM in SVIMS, Tirupati. The engagement will be made purely on temporary basis for a period of one year and it can be terminated at any time without notice or without assigning any reason thereof by the Coordinator of the Project. The person engaged shall not be entitled for any claim implicit or explicit for absorption in the University.</p>

<p>1. Name of the post : Project Assistant</p>

<p>2. Qualification :<br />i) Essential : MSc Bioinformatics/MTech (Biotechnology/Bioinformatics)</p>

<p>ii) Desirable : Experience in Bioinformatics research work (Preference will be given to candidates  qualified in BINC/UGC/CSIR/NET/GATE)</p>

<p>3. Remuneration : 16000 + 10% HRA for NET/GATE candidates 14000 + 10% HRA for M. Tech / M.Sc. Candidates</p>

<p>4. Place of posting : Tirupati</p>

<p>5. Duration of the Project : One year</p>

<p>Terms and conditions:</p>

<p>1. Candidates are required to submit the Biodata relevant certificates in support of their age and educational qualification etc., before the interview committee, SVIMS University, Tirupati.</p>

<p>2. Candidates called for interview will attend the interview at their own cost.<br />3. Interim enquiries will not be entertained.<br />4. The maximum age limit for Project Assistant is 28 years for general category and 33 years for SC and ST category candidates as on 25th September, 2014.</p>

<p>Advertisement:</p>

<p>http://svr98.ehostpros.com/~svimsb98/Project%20Assistant_notification.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41896/kad-assessing-genome-assemblies-using-k-mer-copies-in-assemblies-and-k-mer-abundance-in-illumina-reads</guid>
	<pubDate>Fri, 19 Jun 2020 07:34:12 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41896/kad-assessing-genome-assemblies-using-k-mer-copies-in-assemblies-and-k-mer-abundance-in-illumina-reads</link>
	<title><![CDATA[KAD: Assessing genome assemblies using K-mer copies in assemblies and K-mer abundance in Illumina reads]]></title>
	<description><![CDATA[<p>KAD is designed for evaluating the accuracy of nucleotide base quality of genome assemblies. Briefly, abundance of k-mers are quantified for both sequencing reads and assembly sequences. Comparison of the two values results in a single value per k-mer, K-mer Abundance Difference (KAD), which indicates how well the assembly matches read data for each k-mer.</p>
<p><a href="https://render.githubusercontent.com/render/math?math=KAD=log_{2}\begin{pmatrix}\frac{c%2Bm}{m(n%2B1)}\end{pmatrix}" target="_blank"><img src="https://render.githubusercontent.com/render/math?math=KAD=log_{2}\begin{pmatrix}\frac{c%2Bm}{m(n%2B1)}\end{pmatrix}" alt="image" style="border: 0px;"></a></p>
<p>where,&nbsp;<em>c</em>&nbsp;is the count of a k-mer from reads,&nbsp;<em>m</em>&nbsp;is the mode of counts of read k-mers, and&nbsp;<em>n</em>&nbsp;is the copy of the k-mer in the assembly.</p><p>Address of the bookmark: <a href="https://github.com/liu3zhenlab/KAD" rel="nofollow">https://github.com/liu3zhenlab/KAD</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/42923/flanker</guid>
	<pubDate>Sat, 27 Feb 2021 22:04:53 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/42923/flanker</link>
	<title><![CDATA[Flanker]]></title>
	<description><![CDATA[<p><span>Flanker, a Python package which performs alignment-free clustering of gene flanking sequences in a consistent format, allowing investigation of&nbsp;<span>mobile genetic elements (</span>MGEs) without prior knowledge of their structure.&nbsp;<span>Flanker can be flexibly parameterised to finetune outputs by characterising upstream and downstream regions separately and investigating variable lengths of flanking sequence.</span></span></p>
<p><span><img src="https://github.com/wtmatlock/flanker/raw/main/docs/frontpage.png" alt="image" style="border: 0px;"></span></p><p>Address of the bookmark: <a href="https://github.com/wtmatlock/flanker" rel="nofollow">https://github.com/wtmatlock/flanker</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/17515/ngs-online-training</guid>
  <pubDate>Sat, 27 Sep 2014 07:42:29 -0500</pubDate>
  <link></link>
  <title><![CDATA[NGS Online Training]]></title>
  <description><![CDATA[
<p>ArrayGen Technologies announces to provide online NGS training through out the globe. Now analyze your own NGS datasets from anywhere.For more information contact us at training@arraygen.com</p>

<p>Please visit our site at www.arraygen.com</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43112/calling-variants-in-non-diploid-systems</guid>
	<pubDate>Sat, 26 Jun 2021 15:37:49 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43112/calling-variants-in-non-diploid-systems</link>
	<title><![CDATA[Calling variants in non-diploid systems]]></title>
	<description><![CDATA[<p><span>The main challenge associated with non-diploid variant calling is the difficulty in distinguishing between the sequencing noise (abundant in all NGS platforms) and true low frequency variants. Some of the early attempts to do this well have been accomplished on human mitochondrial&nbsp;</span><span>DNA</span><span>&nbsp;although the same approaches will work equally good on viral and bacterial genomes (</span><a href="https://training.galaxyproject.org/training-material/topics/variant-analysis/tutorials/non-dip/tutorial.html#Rebolledo-Jaramillo2014">Rebolledo-Jaramillo&nbsp;<em>et al.</em>&nbsp;2014</a><span>,&nbsp;</span><a href="https://training.galaxyproject.org/training-material/topics/variant-analysis/tutorials/non-dip/tutorial.html#Li2015">Li&nbsp;<em>et al.</em>&nbsp;2015</a><span>).</span></p><p>Address of the bookmark: <a href="https://training.galaxyproject.org/training-material/topics/variant-analysis/tutorials/non-dip/tutorial.html" rel="nofollow">https://training.galaxyproject.org/training-material/topics/variant-analysis/tutorials/non-dip/tutorial.html</a></p>]]></description>
	<dc:creator>Neel</dc:creator>
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