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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/31881?offset=1230</link>
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	<description><![CDATA[]]></description>
	
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/40707/vt-a-variant-tool-set-that-discovers-short-variants-from-next-generation-sequencing-data</guid>
	<pubDate>Tue, 28 Jan 2020 03:44:43 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/40707/vt-a-variant-tool-set-that-discovers-short-variants-from-next-generation-sequencing-data</link>
	<title><![CDATA[vt: a variant tool set that discovers short variants from Next Generation Sequencing data.]]></title>
	<description><![CDATA[<p><span>vt is a variant tool set that discovers short variants from Next Generation Sequencing data.</span></p>
<p><span><a href="https://genome.sph.umich.edu/wiki/Vt">https://genome.sph.umich.edu/wiki/Vt</a></span></p>
<p><a href="https://github.com/atks/vt">https://github.com/atks/vt</a></p><p>Address of the bookmark: <a href="https://genome.sph.umich.edu/wiki/Vt" rel="nofollow">https://genome.sph.umich.edu/wiki/Vt</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23686/bioinformatics-symposium</guid>
  <pubDate>Tue, 11 Aug 2015 04:02:59 -0500</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics Symposium]]></title>
  <description><![CDATA[
<p>This 2 day symposium will focus on topics in the below mentioned areas.</p>

<p>Experts from India and Japan in this fields will deliver lectures and contribute in discussions. This will provide an opportunity to the participants to interact and learn.</p>

<p>Topics:</p>

<p>    Algorithms for biomolecular Sequences / Structures<br />    Bioinformatics databases and tools<br />    High performance computing<br />    Large scale data analysis<br />    Protein function<br />    Structure based drug design<br />    Applications to specific diseases</p>

<p>More at http://www.iitm.ac.in/bioinfo/Symposium-2015/index.html</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41669/filtlong-quality-filtering-tool-for-long-reads</guid>
	<pubDate>Wed, 13 May 2020 10:23:55 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41669/filtlong-quality-filtering-tool-for-long-reads</link>
	<title><![CDATA[Filtlong: quality filtering tool for long reads]]></title>
	<description><![CDATA[<p>Filtlong is a tool for filtering long reads by quality. It can take a set of long reads and produce a smaller, better subset. It uses both read length (longer is better) and read identity (higher is better) when choosing which reads pass the filter.</p>
<p>Filtlong builds into a stand-alone executable:</p>
<pre><code>git clone https://github.com/rrwick/Filtlong.git
cd Filtlong
make -j
bin/filtlong -h
</code></pre><p>Address of the bookmark: <a href="https://github.com/rrwick/Filtlong" rel="nofollow">https://github.com/rrwick/Filtlong</a></p>]]></description>
	<dc:creator>Radha Agarkar</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/fun/view/23959/bioinformatics-jokes</guid>
	<pubDate>Fri, 21 Aug 2015 01:26:54 -0500</pubDate>
	<link>https://bioinformaticsonline.com/fun/view/23959/bioinformatics-jokes</link>
	<title><![CDATA[Bioinformatics Jokes !!]]></title>
	<description><![CDATA[<p>Why was the Bioinformatics fired from his job?</p><p>A: He was getting too Sassy.</p><p>&nbsp;</p><p>What did the bioinformatician say when he found out his team stopped using version control?</p><p>A: Y&rsquo;all better Git!</p><p>&nbsp;</p><p>Why did the computational biologist stay home from work?</p><p>A: He had a code!</p><p>&nbsp;</p><p>Why was the bioinformatician's paper was rejected?</p><p>A: Journal thought it seemed scripted.</p><p>&nbsp;</p><p>How can you tell that a Bioinformatics is working?</p><p>A: You can hear him Grunting!</p><p>&nbsp;</p><p>Why bioinformatician always silence?</p><p>A: Because bioinformatician calmly whisper, &ldquo;SSH&rdquo;</p><p>&nbsp;</p><p>Why was the bioinformatician always so sleepy?</p><p>A: He/She wasn&rsquo;t given any Java.</p><p>&nbsp;</p><p>Why did the program/software hanged?</p><p>A: Because genome float.</p><p>&nbsp;</p><p>Why was the class upset that its parent died?</p><p>A: Because it wouldn&rsquo;t be getting the inheritance!</p><p>&nbsp;</p><p>Why did bioinformatician always works on the command line?</p><p>A: Because they don't want to scare you with huge amount of data!</p><p>&nbsp;</p><p>Why did the bioinformatician attend the gay pride parade?</p><p>A: They supported polymorphism.</p><p>&nbsp;</p><p>Why did bioinformatician prefer awk, PerlOneliner?</p><p>A: Because even computer can't handle to load the data.</p><p>&nbsp;</p><p>Why don&rsquo;t bioinformatician get along with others?</p><p>A: They&rsquo;re too MEAN.</p><p>&nbsp;</p><p>Why computational biologist are cool?</p><p>A: Because they are scripted!!</p><p>&nbsp;</p><p>Why they talk $ unzip; strip; touch; finger; grep; mount; fsck; more; yes; fsck; fsck; umount; clean; sleep;</p><p>A: Ah, Ohhh, dude, these are *NIX commands</p><p>&nbsp;</p><p>Did they really hack genome?</p><p>A: Yes, I guess so.</p>]]></description>
	<dc:creator>Jitendra Prajapati</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/41920/liftoff-an-accurate-tool-that-maps-annotations-in-gff-or-gtf-between-assemblies</guid>
	<pubDate>Tue, 30 Jun 2020 21:40:52 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/41920/liftoff-an-accurate-tool-that-maps-annotations-in-gff-or-gtf-between-assemblies</link>
	<title><![CDATA[Liftoff: an accurate tool that maps annotations in GFF or GTF between assemblies]]></title>
	<description><![CDATA[<p><span>&nbsp;Liftoff, an accurate tool that maps annotations in GFF or GTF between assemblies of the same, or closely-related species. Unlike current coordinate lift-over tools which require a pre-generated &ldquo;chain&rdquo; file as input, Liftoff is a standalone tool that takes two genome assemblies and a reference annotation as input and outputs an annotation of the target genome.&nbsp;</span></p><p>Address of the bookmark: <a href="https://github.com/agshumate/Liftoff" rel="nofollow">https://github.com/agshumate/Liftoff</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24178/essentials-of-statistics-and-data-analysis-using-r</guid>
  <pubDate>Mon, 31 Aug 2015 01:32:12 -0500</pubDate>
  <link></link>
  <title><![CDATA[Essentials of Statistics and Data Analysis using R]]></title>
  <description><![CDATA[
<p>Clinical Development Services Agency (CDSA) is an extramural unit of Translational Health Science and Technology Institute (THSTI), Department of Biotechnology, Ministry of Science &amp; Technology, Government of India. CDSA has a national mandate of strengthening capacity and capability building in the area of Clinical development and Translational Research.</p>

<p>CDSA is pleased to announce a 4 days hands-on training program on “Essentials of Statistics and Data Analysis using R” at ICGEB, Aruna Asaf Ali Road, New Delhi on December 1 – 4, 2015. This will involve developing and enhancing skills to understand basic principles of statistics for summarizing data and use of appropriate statistical tests as well as providing an understanding of data analysis using R. Didactic lectures with practical sessions will be delivered by experienced faculties from AIIMS and Novartis. Live classroom with power point presentations, case studies, mock exercise, practical sessions on R, group work with time for discussion and Q&amp;A sessions are added advantages of this workshop.</p>

<p>Please contact gayatrivishwakarma.cdsa@thsti.res.in or vineetabaloni.cdsa@thsti.res.in for program and registration details.</p>

<p>Please nominate personage or register yourself on or before November 6, 2015 along with the electronic transfer of registration fee.</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/42160/vicuna-a-software-tool-that-enables-consensus-assembly-of-ultra-deep-sequence-derived-from-diverse-viral-or-other-heterogeneous-populations</guid>
	<pubDate>Tue, 25 Aug 2020 03:40:17 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/42160/vicuna-a-software-tool-that-enables-consensus-assembly-of-ultra-deep-sequence-derived-from-diverse-viral-or-other-heterogeneous-populations</link>
	<title><![CDATA[VICUNA: a software tool that enables consensus assembly of ultra-deep sequence derived from diverse viral or other heterogeneous populations.]]></title>
	<description><![CDATA[<p><span>VICUNA</span><span>&nbsp;is a&nbsp;</span><em>de novo</em><span>&nbsp;assembly program targeting populations with high mutation rates. It creates a single linear representation of the mixed population on which intra-host variants can be mapped. For clinical samples rich in contamination (e.g., &gt;95%), VICUNA can leverage existing genomes, if available, to assemble only target-alike reads. After initial assembly, it can also use existing genomes to perform guided merging of contigs. For each data set (e.g., Illumina paired read, 454), VICUNA outputs consensus sequence(s) and the corresponding multiple sequence alignment of constituent reads. VICUNA efficiently handles ultra-deep sequence data with tens of thousands fold coverage.</span></p>
<p><a href="http://software.broadinstitute.org/viral/docs/vicuna_v1.0.pdf">http://software.broadinstitute.org/viral/docs/vicuna_v1.0.pdf</a></p><p>Address of the bookmark: <a href="https://www.broadinstitute.org/viral-genomics/vicuna" rel="nofollow">https://www.broadinstitute.org/viral-genomics/vicuna</a></p>]]></description>
	<dc:creator>biogeek</dc:creator>
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  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/24298/staff-scientists-at-national-institute-of-plant-genome-research-new-delhi</guid>
  <pubDate>Fri, 04 Sep 2015 22:06:59 -0500</pubDate>
  <link></link>
  <title><![CDATA[Staff Scientists at National Institute of Plant Genome Research, New Delhi]]></title>
  <description><![CDATA[
<p>National Institute of Plant Genome Research, New Delhi is an Autonomous Research Institution funded by Department of Biotechnology, Ministry of Science &amp; Technology, Govt. of India, to pursue research on various aspects of plant genomics. The Institute is also in the process of establishing a NIPGR Translational Centre at Biotech Science Cluster, NCR, Faridabad. NIPGR invites applications from Indian Citizens for filling up the vacant posts on Direct Recruitment basis, as detailed below. The posts are temporary but likely to continue.</p>

<p>Staff Scientists</p>

<p>Specialization: Applicant should have a Ph.D. with excellent academic credentials along with the track record of scientific productivity evidenced by publications/patents/products in the frontier areas of Plant Biology such as, Computational Biology, Genome Analysis and Molecular Mapping, Molecular Mechanism of Abiotic Stress Responses, Nutritional Genomics, Plant Development and Architecture, Plant Immunity, Molecular Breeding, Transgenics for crop improvement and other emerging areas based on plant genomics.</p>

<p>Remuneration: The length of experience and scientific accomplishments/quality of scientific productivity record will be major factors in deciding the level of appointment as Staff Scientist as well as starting salary in the Pay Bands of Rs 15,600-39,100 (with grade pay of  5400), and Rs 37,400-67,000 (with grade pay of  8,700 and  8,900) plus usual allowances admissible to the Central Government employees. However, NIPGR reserves the right to select candidates in the lower grade against the foregoing posts depending upon the qualifications and experience of the candidate. Reservation of posts shall be as per Govt. of India norms. Five posts (SC-2, ST-1, OBC-2) in the Pay Band of Rs 15,600-39,100 with Grade Pay of  Rs 5400, are reserved.</p>

<p>More at http://www.nipgr.res.in/careers/vacancies_latest.php#</p>

<p>Apply online at http://www.nipgr.res.in/nipgr_recu/nipgr_recu.php</p>

<p>Form http://www.nipgr.res.in/files/careers/Application_Performa_2015.doc</p>
]]></description>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/43120/ventoy-an-open-source-tool-to-create-bootable-usb-drive</guid>
	<pubDate>Tue, 29 Jun 2021 10:16:19 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/43120/ventoy-an-open-source-tool-to-create-bootable-usb-drive</link>
	<title><![CDATA[Ventoy: an open source tool to create bootable USB drive]]></title>
	<description><![CDATA[<p>Ventoy is an open source tool to create bootable USB drive for ISO/WIM/IMG/VHD(x)/EFI files. With ventoy, you don't need to format the disk over and over, you just need to copy the image files to the USB drive and boot it. You can copy many image files at a time and ventoy will give you a boot menu to select them. x86 Legacy BIOS, IA32 UEFI, x86_64 UEFI, ARM64 UEFI and MIPS64EL UEFI are supported in the same way. Both MBR and GPT partition style are supported in the same way. Most type of OS supported(Windows/WinPE/Linux/Unix/Vmware/Xen...) 700+ ISO files are tested.&nbsp;</p><p>Address of the bookmark: <a href="https://github.com/ventoy/Ventoy" rel="nofollow">https://github.com/ventoy/Ventoy</a></p>]]></description>
	<dc:creator>LEGE</dc:creator>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/31278/metapred2cs</guid>
	<pubDate>Fri, 03 Mar 2017 05:15:07 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/31278/metapred2cs</link>
	<title><![CDATA[MetaPred2CS]]></title>
	<description><![CDATA[<p style="text-align: justify;"><strong>MetaPred2CS Web server&nbsp;</strong>is a meta-predictor based on&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/17160063">Support Vector Machine (SVM)</a>&nbsp;that combines 6 individual sequence based protein-protein interaction prediction methods to predict&nbsp;<strong>prokaryotic two-component system&nbsp;</strong>protein-protein interactions (PPIs). The methods implemented in MetaPred2CS are 2 co-evolutionary methods:&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/11933068">in-silico two hybrid (i2h)</a>&nbsp;and&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/11707606">mirror tree (MT)</a>&nbsp;methods and 4 genomics context based methods:&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/15947018">phylogenetic profiling (PP)</a>,&nbsp;<a href="http://www.ncbi.nlm.nih.gov/pubmed/10573422">gene fusion (GF)</a>,&nbsp;<a href="http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.0030043">gene neighbourhood (GN)</a>&nbsp;and and&nbsp;<a href="http://www.ploscompbiol.org/article/info%3Adoi%2F10.1371%2Fjournal.pcbi.0030043">gene operon methods (GO)</a>.</p>
<p>&nbsp;http://metapred2cs.ibers.aber.ac.uk/</p><p>Address of the bookmark: <a href="https://github.com/martinjvickers/MetaPred2CS" rel="nofollow">https://github.com/martinjvickers/MetaPred2CS</a></p>]]></description>
	<dc:creator>Manisha Mishra</dc:creator>
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