<?xml version='1.0'?><rss version="2.0" xmlns:dc="http://purl.org/dc/elements/1.1/" xmlns:georss="http://www.georss.org/georss" xmlns:atom="http://www.w3.org/2005/Atom" >
<channel>
	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/30236?offset=590</link>
	<atom:link href="https://bioinformaticsonline.com/related/30236?offset=590" rel="self" type="application/rss+xml" />
	<description><![CDATA[]]></description>
	
	
<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/23537/research-associate-bioinformatics-central-institute-for-research-on-buffaloes-cirb-hisar-haryana</guid>
  <pubDate>Fri, 31 Jul 2015 10:19:45 -0500</pubDate>
  <link></link>
  <title><![CDATA[Research Associate Bioinformatics Central Institute for Research on Buffaloes (CIRB) - Hisar, Haryana]]></title>
  <description><![CDATA[
<p>Research Associate (RA) under Network Project on Agricultural Bioinformatics</p>

<p>Name of the Project : Network Project on Agricultural Bioinformatics Number of positions One<br />Qualifications : Ph.D Degree in Bioinformatics/Biotechnology/ Biochemistry/Genetics &amp; Breeding/Life Sciences OR Master’s Degree in relevant subject with at least 2 years research experience. Desirable : Working experience in Molecular Biology/Genomics/Bioinformatics, specifically, sequence data analysis using software’s proficiently</p>

<p>Emoluments : Masters Degree Holders Rs. 38,000/- per month Doctoral Degree Holders Rs. 40,000/- per month</p>

<p>Emoluments : Rs.25000/- per month for 1st and 2nd year and Rs. 28000/- per month for 3rd year<br />Age Limit : Upper age limit is 35 years for men and 40 years for women on the date of interview. Age relaxation for SC/ST and OBC candidates as per rules</p>

<p>More at http://www.cirb.res.in/attachments/195_walk-in-interview%20for%20contractual%20positions%20of%20RA%20and%20SRF%20%28On%20Dated%2011.8.2015%29.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/36950/salsa-a-tool-to-scaffold-long-read-assemblies-with-hi-c</guid>
	<pubDate>Fri, 15 Jun 2018 04:01:15 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/36950/salsa-a-tool-to-scaffold-long-read-assemblies-with-hi-c</link>
	<title><![CDATA[SALSA: A tool to scaffold long read assemblies with Hi-C]]></title>
	<description><![CDATA[This code is used to scaffold your assemblies using Hi-C data. This version implements some improvements in the original SALSA algorithm. If you want to use the old version, it can be found in the old_salsa branch.

To use the latest version, first run the following commands:

  cd SALSA
  make
To run the code, you will need Python 2.7, BOOST libraries and Networkx(version lower than 1.2).

If you consider using this tool, please cite our publication which describes the methods used for scaffolding.

Ghurye, J., Pop, M., Koren, S., Bickhart, D., &amp; Chin, C. S. (2017). Scaffolding of long read assemblies using long range contact information. BMC genomics, 18(1), 527. Link

Ghurye, J., Rhie, A., Walenz, B.P., Schmitt, A., Selvaraj, S., Pop, M., Phillippy, A.M. and Koren, S., 2018. Integrating Hi-C links with assembly graphs for chromosome-scale assembly. bioRxiv, p.261149 Link

For any queries, please either ask on github issue page or send an email to Jay Ghurye (jayg@cs.umd.edu).<p>Address of the bookmark: <a href="https://github.com/machinegun/SALSA" rel="nofollow">https://github.com/machinegun/SALSA</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21022/ra-bioinformatics-at-tezpur-university</guid>
  <pubDate>Fri, 06 Feb 2015 04:11:23 -0600</pubDate>
  <link></link>
  <title><![CDATA[RA Bioinformatics at TEZPUR UNIVERSITY]]></title>
  <description><![CDATA[
<p>Walk-in-interview will be held on 23 February, 2015 at 11.00 a.m. for the following temporary positions in the DBT (U-EXCEL) sponsored project entitled “Sequencing genomes of some bacteria that invade/resides in tomato plant” under the Principal Investigator Dr. Suvendra Kumar Ray, Department of Molecular Biology and Biotechnology, Tezpur University.</p>

<p>Interested candidates may appear before the interview board on 23 February, 2015 at the Office of the Head, Department of Molecular Biology &amp; Biotechnology, Tezpur University with original documents and photocopies of marks sheets, certificates, testimonials, caste certificate (if applicable), experience certificate and a copy of curriculum vitae (CV) duly signed by the candidate.</p>

<p>Position: One (01) Research Associate.</p>

<p>Educational Qualification: Candidates having Ph.D. degree or submitted thesis in any topic of Life Science Areas (Zoology, Botany, Microbiology, Biotechnology etc.) along with knowledge of gene and protein sequence analysis may apply.</p>

<p>Remuneration: Rs. 22,000/- (Rupees twenty two thousand) only + 10% HRA as admissible per month for the first year and Rs. 23,000/- (Rupees twenty three thousand) only + 10% HRA as admissible per month for the second year.</p>

<p>Age: Candidate preferably below the age of 40 years who have obtained a doctorate (Ph.D.) degree from a recognized University.</p>

<p>Upper age limit may be relaxed up to 5 years in the case of candidates belonging SC/ST/OBC/Women and physically challenged.</p>

<p>Position: One (01) Project Assistant.</p>

<p>Educational Qualification: B.Sc./B.Tech./B.E./B.Pharma in any branch with minimum 55% mark in the qualifying examinations and minimum 50 % mark in 10th and 10+2 Science examinations.</p>

<p>Remuneration: Rs. 8,000/- (Rupees eight thousand) only per month (consolidated). Age: Candidate should not be more than 28 years of age on the date of interview. Upper age limit may be relaxed up to 5 years in the case of candidate belonging to SC/ST/OBC/Women/Physically Challenged.</p>

<p>Duration: One year or till completion of the project, whichever is earlier. N.B. No TA/DA will be paid to the candidates for attending the interview.</p>

<p>For further information contact – Dr. Suvendra Kumar Ray, Associate Professor Email: suven@tezu.ernet.in Department of Molecular Biology and Biotechnology Tezpur University Sd/- Dean, Research &amp; Development Tezpur University</p>

<p>Advertisement: http://www.tezu.ernet.in/ProjectWalkin/Advt-SKR2-5342-A.pdf</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21095/ra-walk-in-interview-actrec</guid>
  <pubDate>Mon, 09 Feb 2015 01:06:16 -0600</pubDate>
  <link></link>
  <title><![CDATA[RA WALK-IN-INTERVIEW @ ACTREC]]></title>
  <description><![CDATA[
<p>No. ACTREC/Advt./ 7 /2015</p>

<p>Title of the Project<br />Research Associate<br />(One position)<br />DBTs Biotechnology/Bioinformatics training centre<br />PI Dr. Ashok Varma	</p>

<p>Duration of the Project Six Months from the date of appointment, can be extended further for six month.</p>

<p>Date &amp; Time: 17th February, 2015 at 10.00 a.m.</p>

<p>Venue: Meeting Room, 3rd floor, Khanolkar Shodhika, ACTREC</p>

<p>Essential Qualifications and Experience:</p>

<p>Ph.D. Degree in Basic Sciences from recognized University. Research experience in Bioinformatics or on gene cloning, protein purification, and crystallization.</p>

<p>*M.Sc. degree obtained after a one year course will not be considered.</p>

<p>Selected candidate will have to join at the earliest.</p>

<p>Consolidated Salary: Rs.28,600/- p.m. {Rs.22,000/- + 30% HRA}</p>

<p>The work progress of the candidate will be monitored and extension after 6 months will depend on satisfactory progress of the work.</p>

<p>Candidates fulfilling these requirements should pre-register by sending their application in the prescribed format with recent CV and contact details of 2 referees by e-mail to ‘program.office@actrec.gov.in’ latest by 17.00 hrs on 12-02-2015.<br />The interviews would be held on 17th February, 2015 and will be only for the pre-registered candidates. Candidates should report between 09.30 to 10.00 a.m. in Steno Pool, 3rd floor, Khanolkar Shodhika, ACTREC, Kharghar, Navi Mumbai.<br />No T.A./D.A. will be admissible for attending the interview.</p>

<p>At the time of Interview the candidate should bring original certificates along with CV with contact details of 2 referees and submit the photocopies (attested) of the certificates, with a recent passport size photograph.</p>

<p>All correspondence should be strictly made only to ‘program.office@actrec.gov.in’ as indicated.</p>

<p>Advertisement: www.actrec.gov.in/data%20files/2015/AV-RA-DBT-28-1-15.docx</p>
]]></description>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21242/summer-intern-research-bioinformatics</guid>
  <pubDate>Mon, 16 Feb 2015 12:26:32 -0600</pubDate>
  <link></link>
  <title><![CDATA[Summer Intern - Research Bioinformatics]]></title>
  <description><![CDATA[
<p>Be proficient in LINUX, know perl or python, understand biology and Next Generation Sequencing.<br />The intern will port Agile Assay Design pipelines into Galaxy.<br />The intern will also learn to develope his/her own bioinformatics pipelines for PCR or NGS data analysis.</p>

<p>Who you are<br />You’re someone who wants to influence your own development. You’re looking for a company where you have the opportunity to pursue your interests across functions and geographies. Where a job title is not considered the final definition of who you are, but the starting point.</p>

<p>Qualifications:<br />Major: Bioinformatcis or biology major who is interested and wants to learn Biocomputing, At least 2 years of college.<br />Basic knowledge of LINUX and programming, e.g., perl, python, XML.</p>

<p>More at http://www.roche.com/careers/jobs/jobsearch/job.htm?id=E-00437679&amp;locale=en&amp;title=Summer%20Intern%20-%20Research%20Bioinformatics</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38441/genome-sequence-based-sub-species-delineation</guid>
	<pubDate>Wed, 12 Dec 2018 08:31:14 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38441/genome-sequence-based-sub-species-delineation</link>
	<title><![CDATA[Genome sequence-based (sub-)species delineation.]]></title>
	<description><![CDATA[<p>The GGDC web service reports digital DDH for a universal and accurate delineation of prokaryotic (sub-)species without inheriting the pitfalls of classic DDH, and also calculates differences in genomic G+C content.</p>
<p>http://ggdc.dsmz.de/ggdc_background.php#</p>
<p><small>Genome-to-Genome Distance Calculator 2.1</small></p>
<p>http://ggdc.dsmz.de/ggdc.php</p>
<p>&nbsp;</p><p>Address of the bookmark: <a href="http://ggdc.dsmz.de/" rel="nofollow">http://ggdc.dsmz.de/</a></p>]]></description>
	<dc:creator>Abhimanyu Singh</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21436/jrf-bioinformatics-iisr-kozhikode</guid>
  <pubDate>Tue, 24 Feb 2015 08:44:17 -0600</pubDate>
  <link></link>
  <title><![CDATA[JRF Bioinformatics @ IISR, Kozhikode]]></title>
  <description><![CDATA[
<p>JRF Bioinformatics Jobs recruitment in Indian Institute of Spices Research on temporary basis</p>

<p>Name of the Scheme : Distributed Information Sub Centre – DISC</p>

<p>Qualifications :  M.Sc/ B Tech in Bioinformatics with NET/GATE or M Tech in Bioinformatics</p>

<p>Number of posts : One</p>

<p>Emoluments : Rs. 25,000/-</p>

<p>Upper age limit : 35 years for Men &amp; 40 years for Women as on date of Interview<br />How to apply</p>

<p>Date of Interview : 12-03-2015 at 10.00 AM. All relevant certificates (in original) and bio data, No objection certificate in case he/she is employed elsewhere and experience certificate in original (if any) need to be produced at the time of interview.</p>

<p>More at http://spices.res.in/index.php?option=com_content&amp;view=article&amp;id=263</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38758/roary-the-pan-genome-pipeline</guid>
	<pubDate>Tue, 22 Jan 2019 05:52:07 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38758/roary-the-pan-genome-pipeline</link>
	<title><![CDATA[Roary: the Pan Genome Pipeline]]></title>
	<description><![CDATA[<p><span>Roary is a high speed stand alone pan genome pipeline, which takes annotated assemblies in GFF3 format (produced by Prokka (Seemann, 2014)) and calculates the pan genome. Using a standard desktop PC, it can analyse datasets with thousands of samples, something which is computationally infeasible with existing methods, without compromising the quality of the results. 128 samples can be analysed in under 1 hour using 1 GB of RAM and a single processor. To perform this analysis using existing methods would take weeks and hundreds of GB of RAM. Roary is not intended for meta-genomics or for comparing extremely diverse sets of genomes.</span></p><p>Address of the bookmark: <a href="https://sanger-pathogens.github.io/Roary/" rel="nofollow">https://sanger-pathogens.github.io/Roary/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/pages/view/21444/a-guide-for-complete-r-beginners-installing-r-packages</guid>
	<pubDate>Tue, 24 Feb 2015 20:23:34 -0600</pubDate>
	<link>https://bioinformaticsonline.com/pages/view/21444/a-guide-for-complete-r-beginners-installing-r-packages</link>
	<title><![CDATA[A guide for complete R beginners :- Installing R packages]]></title>
	<description><![CDATA[<p>Part of the reason R has become so popular is the vast array of packages available at the <a href="http://cran.r-project.org/" target="_blank">cran</a> and <a href="http://www.bioconductor.org/" target="_blank">bioconductor</a> repositories. In the last few years, the number of packages has grown <a href="http://blog.revolutionanalytics.com/2010/09/what-can-other-languages-learn-from-r.html" target="_blank">exponentially</a>!</p><p>This is a short post giving steps on how to actually install R packages. Let&rsquo;s suppose you want to install the <a href="http://had.co.nz/ggplot2/" target="_blank">ggplot2</a> package. Well nothing could be easier. We just fire up an R shell and type:<br /><code><br />&gt; install.packages("ggplot2")</code></p><p>In theory the package should just install, however:</p><ul>
<li>if you are using Linux and don&rsquo;t have root access, this command won&rsquo;t work.</li>
<li>you will be asked to select your local mirror, i.e. which server should you use to download the package.</li>
</ul><h4>Installing packages without root access</h4><p>First, you need to designate a directory where you will store the downloaded packages. On my machine, I use the directory <code>/data/Rpackages/</code> After creating a package directory, to install a package we use the command:<br /><code><br />&gt; install.packages("ggplot2"</code><code>, lib="/data/Rpackages/")<br />&gt; library(ggplot2, lib.loc="/data/Rpackages/")<br /></code></p><p>It&rsquo;s a bit of a pain having to type <code>/data/Rpackages/</code> all the time. To avoid this burden,&nbsp; we create a file <code>.Renviron</code> in our home area, and add the line <code>R_LIBS=/data/Rpackages/</code> to it. This means that whenever you start R, the directory <code>/data/Rpackages/</code> is added to the list of places to look for R packages and so:</p><p><code>&gt; install.packages("ggplot2"</code><code>)<br />&gt; library(ggplot2)</code></p><p>just works!</p><h4>Setting the repository</h4><p>Every time you install a R package, you are asked which repository R should use. To set the repository and avoid having to specify this at every package install, simply:</p><ul>
<li>create a file <code>.Rprofile</code> in your home area.</li>
<li>Add the following piece of code to it:</li>
</ul><p><code><br />cat(".Rprofile: Setting UK repositoryn")<br />r = getOption("repos") # hard code the UK repo for CRAN<br />r["CRAN"] = "http://cran.uk.r-project.org"<br />options(repos = r)<br />rm(r)<br /></code></p><p>I found this tip in a stackoverflow <a href="http://stackoverflow.com/questions/1189759/expert-r-users-whats-in-your-rprofile/1189826#1189826" target="_blank">answer </a>.</p>]]></description>
	<dc:creator>Archana Malhotra</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/21830/research-associate-bioinformatics-job-position-in-indian-agricultural-statistics-research-institute-iasri</guid>
  <pubDate>Tue, 31 Mar 2015 20:45:14 -0500</pubDate>
  <link></link>
  <title><![CDATA[Research Associate Bioinformatics job position in Indian Agricultural Statistics Research Institute (IASRI)]]></title>
  <description><![CDATA[
<p>Research Associate Bioinformatics job position in Indian Agricultural Statistics Research Institute (IASRI)</p>

<p>Qualification : Ph.D. in Bioinformatics/ Agricultural Statistics/ Statistics/ Computer Science/ Computer Application/ Life Science/ Biotechnology/ Agricultural Science or equivalent. Desirable: Knowledge of Statistical and Computational Genomics/ Proteomics/ Bioinformatics OR Post-Graduation in Bioinformatics/ Agricultural Statistics/ Statistics/ Computer Science/ Computer Application/ Life Science/ Biotechnology/ Agricultural Science or equivalent with 1st Division or 60% marks or equivalent with at least two years of research experience. Desirable:Expertise on use of various software/ tool.</p>

<p>No.of Post: 2</p>

<p>Emoluments for RA: Consolidated Rs. 24000/- per month + 30% HRA for Ph.D holders and consolidated Rs. 23000/- per month + 30% HRA for Master Degree.</p>

<p>Age Limit : Age should not be more than 40 years for the post of Research associate (5 years relaxation for SC/ST/ women candidates) and 3 years for OBC candidates as on date of interview.<br />How to apply</p>

<p>Interested candidates are invited to appear for Walk-In interview at Indian Agricultural Statistics Research Institute, Library Avenue, Pusa, New Delhi -110012, along with filled in application form , all the original certificates from matriculation onwards, Ph.D. or M.Sc. certificate (as the case may be) must be produced at the time of interview in either original or provisional, Bio-Data, attested copies of all experience certificates, testimonials etc., one passport size photograph and one set of the self-attested photocopies of all the required certificates from matriculation onwards and an attested copy of recent passport size photograph pasted onto the application form. Walk-in interview will be held on 16th April, 2015 at 10:30 a.m.</p>

<p>Click Here for Job Details &amp; Application Form http://www.iasri.res.in/employment/employment.htm</p>
]]></description>
</item>

</channel>
</rss>