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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/27092?offset=1320</link>
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	<description><![CDATA[]]></description>
	
	<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36012/gmol-an-interactive-tool-for-3d-genome-structure-visualization</guid>
	<pubDate>Wed, 21 Mar 2018 12:25:20 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36012/gmol-an-interactive-tool-for-3d-genome-structure-visualization</link>
	<title><![CDATA[GMOL: An Interactive Tool for 3D Genome Structure Visualization]]></title>
	<description><![CDATA[<p><span>GMOL was developed based upon our multi-scale approach that allows a user to scale between six separate levels within the genome. With GMOL, a user can choose any unit at any scale and scale it up or down to visualize its structure and retrieve corresponding genome sequences.</span></p><p>Address of the bookmark: <a href="https://www.nature.com/articles/srep20802" rel="nofollow">https://www.nature.com/articles/srep20802</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/18579/cluster-innovation-center-university-of-delhi</guid>
  <pubDate>Wed, 22 Oct 2014 10:39:49 -0500</pubDate>
  <link></link>
  <title><![CDATA[CLUSTER INNOVATION CENTER @ UNIVERSITY OF DELHI]]></title>
  <description><![CDATA[
<p>Applications for Pre-selection of  candidates under ‘Institutions Mode’ for DST-ISPIRE Faculty in  Computational Biology/ Systems Biology/ Bioinformatics</p>

<p>Applications are invited for pre-selection  of candidates for Ministry of Science and Technology, Department of Science and Technology INSPIRE Faculty Scheme: a component of “Assured Opportunity for Research Career (AORC)” under INSPIRE in the area of computational Biology/Systems Biology/Bioinformatics.</p>

<p>Candidates having done their B.Tech/B.E.  and or M.Sc./M.Tech in Computer Science or Biotechnology and Ph.D. in Systems/ Computational Biology or Bioinformatics may apply in the following format prescribed by DST to the Director, Cluster Innovation Center, University Stadium, GC Narang Marg, University of Delhi, Delhi -11107. Detials of other qualification, age limits etc., please visit www.inspire-dst.gov.in.</p>

<p>Application on the prescribed format may be submitted by email to director@cic.du.ac.in before October 25, 2014. Selected candidates shall be called for an interview. The date, time and venue of the interview shall be informed by email/telephone. For more information about Cluster Innovation Center, please visit https://ducic.ac.in.</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36905/d-genies-a-tool-for-dotplot-large-genomes-in-an-interactive-efficient-and-simple-way</guid>
	<pubDate>Mon, 11 Jun 2018 09:41:22 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36905/d-genies-a-tool-for-dotplot-large-genomes-in-an-interactive-efficient-and-simple-way</link>
	<title><![CDATA[D-GENIES: A tool for Dotplot large Genomes in an Interactive, Efficient and Simple way]]></title>
	<description><![CDATA[D-GENIES – for Dotplot large Genomes in an Interactive, Efficient and Simple way – is an online tool designed to compare two genomes. It supports large genome and you can interact with the dot plot to improve the visualisation.

We use minimap version 2 to align the two genomes. Then, the PAF file is parsed and plotted into an interactive plot written with d3.js library.

D-Genies also allows to display dot plots from other aligners by uploading their PAF or MAF alignment file.

http://dgenies.toulouse.inra.fr/<p>Address of the bookmark: <a href="http://dgenies.toulouse.inra.fr/" rel="nofollow">http://dgenies.toulouse.inra.fr/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/news/view/19059/ipython-interactive-notebooks</guid>
	<pubDate>Fri, 07 Nov 2014 12:07:02 -0600</pubDate>
	<link>https://bioinformaticsonline.com/news/view/19059/ipython-interactive-notebooks</link>
	<title><![CDATA[IPython: Interactive notebooks]]></title>
	<description><![CDATA[<p>The IPython Notebook is a web-based interactive computational environment where you can combine code execution, text, mathematics, plots and rich media into a single document.</p><p>These notebooks are normal files that can be shared with colleagues, converted to other formats such as HTML or PDF, etc. You can share any publicly available notebook by using the IPython Notebook Viewer service which will render it as a static web page. This makes it easy to give your colleagues a document they can read immediately without having to install anything.</p><p><img src="http://ipython.org/_images/9_home_fperez_prof_grants_1207-sloan-ipython_proposal_fig_ipython-notebook-specgram.png" width="985" height="916" alt="image" style="border: 0px;"><br /><br />To learn more about using the IPython Notebook, you can visit our example collection, and you can read the documentation for all the details on how to use and configure the system. The Notebook Gallery showcases many interesting notebooks covering a variety of topics, from basic programming to advanced scientific computing.</p><p>&nbsp;</p><p>More http://www.nature.com/news/interactive-notebooks-sharing-the-code-1.16261</p><p>http://ipython.org/ipython-doc/1/interactive/notebook.html</p><p>Reference http://ipython.org/notebook.html</p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38577/genoviz-visualization-software-for-genomics</guid>
	<pubDate>Wed, 02 Jan 2019 04:07:57 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38577/genoviz-visualization-software-for-genomics</link>
	<title><![CDATA[GenoViz: Visualization software for genomics]]></title>
	<description><![CDATA[<p><span>GenoViz provides software applications and re-usable components for data visualization and data sharing in genomics. Our flagship product is Integrated Genome Browser (IGB).</span><br><br><span>For more information about IGB, visit&nbsp;</span><a href="http://bioviz.org/" target="_blank">http://bioviz.org<span></span></a><span>.</span><br><br><span>Source code for the project was hosted here for many years. In 2014, we moved to a new git repository at&nbsp;</span><a href="http://www.bitbucket.org/lorainelab/integrated-genome-browser" target="_blank">http://www.bitbucket.org/lorainelab/integrated-genome-browser<span></span></a><span>. We are still using SourceForge to distribute new releases of IGB as compiled code (igb.zip) you can use to run IGB on your computer.&nbsp;</span><br><br><span>If you have questions, feel free to get in touch. Contact project head Ann Loraine (</span><a href="mailto:aloraine@uncc.edu" target="_blank">aloraine@uncc.edu<span></span></a><span>) or lead developer David Norris (</span><a href="mailto:dcnorris@uncc.edu" target="_blank">dcnorris@uncc.edu<span></span></a><span>&gt;).</span></p><p>Address of the bookmark: <a href="https://sourceforge.net/projects/genoviz/" rel="nofollow">https://sourceforge.net/projects/genoviz/</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
</item>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/39917/chromomap-an-r-package-for-interactive-visualization-and-annotation-of-chromosomes</guid>
	<pubDate>Sat, 07 Sep 2019 10:45:31 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/39917/chromomap-an-r-package-for-interactive-visualization-and-annotation-of-chromosomes</link>
	<title><![CDATA[chromoMap-An R package for Interactive Visualization and Annotation of Chromosomes]]></title>
	<description><![CDATA[<p><code>chromoMap</code>&nbsp;provides interactive, configurable and elegant graphics visualization of chromosomes or chromosomal regions allowing users to map chromosome elements (like genes,SNPs etc.) on the chromosome plot.Each chromosome is composed of loci(representing a specific range determined based on chromosome length) that, on hover, shows details about the annotations in that locus range. The plots can be saved as HTML documents that can be shared easily. In addition, you can include them in R Markdown or in R Shiny applications.</p>
<p>Some of the prominent features of the package are:</p>
<ul>
<li>visualizing polyploidy simultaneously on the same plot.</li>
<li>annotating groups of elements as distinct colors.</li>
<li>creating chromosome heatmaps.</li>
<li>adjusting chromosome range or visualizing chromosome regions such as genes</li>
<li>adding labels to the plot</li>
<li>adding hyperlinks to each element</li>
</ul><p>Address of the bookmark: <a href="https://cran.r-project.org/web/packages/chromoMap/vignettes/chromoMap.html" rel="nofollow">https://cran.r-project.org/web/packages/chromoMap/vignettes/chromoMap.html</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19161/niab-molecular-biologybioinformatics-scientistra-openings</guid>
  <pubDate>Thu, 13 Nov 2014 13:37:27 -0600</pubDate>
  <link></link>
  <title><![CDATA[NIAB Molecular Biology/Bioinformatics Scientist/RA Openings]]></title>
  <description><![CDATA[
<p>D. No. 1-121/1, 4th and 5th Floors, Axis Clinicals Building, Miyapur, Hyderabad, Telangana, India- 500 049</p>

<p>Email: admin@niab.org.in Telephones: +91 40 2304 9403 Telefax: +91 40 2304 2740<br />Advertisement No: 5/2014</p>

<p>About NIAB National Institute of Animal Biotechnology (NIAB), Hyderabad, an autonomous institute under the aegis of Department of Biotechnology, Government of India, is aimed to harness novel and emerging biotechnologies and create knowledge in the cutting edge areas for improving animal health and productivity.</p>

<p>Applications are invited for the following temporary research positions to work in ongoing DBTBBSRC sponsored research project entitled “Transcriptome Analysis in Indian buffalo and the Genetics of Innate Immunity” at the National Institute of Animal Biotechnology, Hyderabad.</p>

<p>(A) Project Scientist – Level B (One Position)</p>

<p>Emoluments: Rs. 15600 + GP Rs. 5400 + 30 % HRA p.m. (Total emoluments will be Rs. 49,770/-p.m. for the duration of the project)</p>

<p>Essential Qualification: Candidates having M.V.Sc. in Veterinary Microbiology / Veterinary Pathology / Veterinary Public Health / Ph.D. degree in Life Sciences, Biotechnology, Molecular Biology or any other related field from the recognized university are eligible to apply.</p>

<p>The candidate should have a good academic record and research experience as evidenced from published in standard referred journals / patents.</p>

<p>Desirable: Candidates having research experience in the area of tissue culture, genomics, Transcriptomics and Advanced Molecular Biology will be given preference.</p>

<p>Age Limit: Not exceeding 30 years as on last date of the submission of the application.</p>

<p>(B) Research Associate in Bioinformatics (One position)</p>

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

<p>Essential Qualification: Candidates having Ph.D. degree or M.Tech. with three years of<br />experience in Bioinformatics, Computational Biology, Biotechnology, Life Sciences or any other related field are eligible to apply.</p>

<p>Desirable: Candidate having research experience in the area of next generation sequencing (NGS) data analysis, Genome wide association studies, Genomic selection, advance genomic data analysis etc., will be given preference. The candidate should have a good academic record and research experience as evidenced from published papers in standard journals / patents.</p>

<p>Age Limit: Not exceeding 30 years as on last date of the submission of the application.</p>

<p>Project Duration: The duration of the project is Three years and the positions are co- terminus with the duration of the project. (Initial appointment will be for one year and further extension will be granted based on annual review).</p>

<p>Mode of submission of application: Only online applications are to be submitted through<br />www.niab.org.in on or before 08 December, 2014. Link for online submission of applications will be available from 10 November 2014.</p>

<p>Advertisement: www.niab.org.in/Notifications/Advt_5_2014/Advt_5_2014.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/44557/fundamentals-of-data-visualization-by-claus-o-wilke</guid>
	<pubDate>Sat, 08 Jun 2024 16:07:19 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/44557/fundamentals-of-data-visualization-by-claus-o-wilke</link>
	<title><![CDATA[Fundamentals of Data Visualization by Claus O. Wilke]]></title>
	<description><![CDATA[<p><span><span>The book is meant as a guide to making visualizations that accurately reflect the data, tell a story, and look professional. It has grown out of my experience of working with students and postdocs in my laboratory on thousands of data visualizations. Over the years, I have noticed that the same issues arise over and over. I have attempted to collect my accumulated knowledge from these interactions in the form of this book.</span></span></p>
<p><span>The entire book is written in R Markdown, using RStudio as my text editor and the&nbsp;</span><span>bookdown</span><span>&nbsp;package to turn a collection of markdown documents into a coherent whole. The book&rsquo;s source code is hosted on GitHub, at&nbsp;</span><a href="https://github.com/clauswilke/dataviz">https://github.com/clauswilke/dataviz</a><span>.&nbsp;</span></p><p>Address of the bookmark: <a href="https://clauswilke.com/dataviz/" rel="nofollow">https://clauswilke.com/dataviz/</a></p>]]></description>
	<dc:creator>Abhi</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/19249/bioinformatics-jrfrasrf-position-at-panjab-university</guid>
  <pubDate>Wed, 19 Nov 2014 20:19:49 -0600</pubDate>
  <link></link>
  <title><![CDATA[Bioinformatics JRF/RA/SRF position at PANJAB UNIVERSITY]]></title>
  <description><![CDATA[
<p>CENTRE FOR SYSTEMS BIOLOGY &amp; BIOINFORMATICS<br />UIEAST, PANJAB UNIVERSITY, CHANDIGARH</p>

<p>Applications are invited along with complete bio-data and attested copies of certificates of qualifications, experience etc. for the one post of Research Fellow and one post of Program Assistant under PURSE Grant of the University in Centre for Systems Biology &amp; Bioinformatics, UIEAST, Panjab University, Chandigarh which is tenable till the period of<br />the project.</p>

<p>Essential Qualification</p>

<p>For Research Fellow:-</p>

<p>M.Sc. in Systems Biology and Bioinformatics / Life Sciences with minimum 55% marks.</p>

<p>Preference will be given to NET/GATE/ICMR qualified candidates without fellowship however, candidates who have cleared the Panjab University Ph.D. entrance test in Systems Biology &amp; Bioinformatics will also be eligible.</p>

<p>For Program Assistant:-</p>

<p>The candidate must have M.Sc./M.Tech/MCA/PGDCA in Computer Science and must be able to handle LAN, Linex. Preference will be given to the candidate having experience in<br />System Administration.</p>

<p>Emoluments</p>

<p>For Research Fellow Rs. 12,500/- per month (Fixed)<br />For Program Assistant Rs. 12,500/- per month (Fixed)</p>

<p>Applications should be reach on or before 19-11-2014 in the office of the undersigned.</p>

<p>Interview will be held on 21-11-2014 in the office of the Coordinator, Centre for Systems Biology &amp; Bioinformatics, South Campus, Block-3, Sector-25, Panjab University, Chandigarh. No TA/DA will be paid.</p>

<p>Advertisement:</p>

<p>http://jobs.puchd.ac.in/includes/jobs/2014/20141110143634-Advertisement.pdf</p>
]]></description>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/33942/mulan-multiple-sequence-local-alignment-and-conservation-visualization-tool</guid>
	<pubDate>Thu, 20 Jul 2017 08:02:32 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/33942/mulan-multiple-sequence-local-alignment-and-conservation-visualization-tool</link>
	<title><![CDATA[Mulan: MUltiple sequence Local AligNment and conservation visualization tool]]></title>
	<description><![CDATA[<p><span>Mulan performs multiple (2 or more) sequence alignments with an efficient and rapid "full local" alignment strategy that ensures a recapitulation of evolutionary sequence rearrangements (such as inversions and reshuffling) in any of the species. It combines&nbsp;</span><a href="http://www.bx.psu.edu/miller_lab/" target="_new"><em>refine</em>&nbsp;and&nbsp;<em>tba</em></a><span>&nbsp;tools to align either "draft" or "finished" quality sequences. Mulan provides a dynamic graphical interface to align and visualize conservation profiles for evolutionarily distant and closely related species.</span><br><span></span></p>
<p><span>Input formats, automated data upload from the&nbsp;</span><a href="http://genome.ucsc.edu/" target="_new">UCSC Genome Browser</a><span>, gene annotation, annotation of repetitive elements, and progress report were previously described in the&nbsp;</span><a href="https://zpicture.dcode.org/zpInstructions.html" target="_zp">zPicture instructions</a><span>&nbsp;and we refer the users to these materials for more details. This introduction is mainly focused on some novel features unique to the Mulan.</span><span><br></span></p><p>Address of the bookmark: <a href="https://mulan.dcode.org/mulanInstructions.php" rel="nofollow">https://mulan.dcode.org/mulanInstructions.php</a></p>]]></description>
	<dc:creator>Rahul Nayak</dc:creator>
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