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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/12787?offset=1260</link>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/29576/impute2</guid>
	<pubDate>Thu, 27 Oct 2016 11:21:44 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/29576/impute2</link>
	<title><![CDATA[IMPUTE2]]></title>
	<description><![CDATA[<p><strong>IMPUTE2</strong>&nbsp;is a computer program for phasing observed genotypes and imputing missing genotypes. Most people use just a couple of the program's basic functions, but we have also built up a collection of specialized and powerful options. If you are new to&nbsp;<strong>IMPUTE2</strong>, or indeed to phasing and imputation in general, we suggest that you start by learning the basics.</p>
<p>You should begin by downloading the program from&nbsp;<a href="https://mathgen.stats.ox.ac.uk/impute/impute_v2.html#download">here</a>. You will need to choose the link that matches your computing platform and then follow the instructions for opening the download package.</p>
<p>Once you have done this, you will be ready to try some example analyses on the test data that are provided with the download. The section on&nbsp;<a href="https://mathgen.stats.ox.ac.uk/impute/impute_v2.html#examples">Examples</a>&nbsp;shows how to use the most common&nbsp;<strong>IMPUTE2</strong>&nbsp;functions. We suggest that you work through these examples and try to understand what the elements of each command are doing. If you don't understand something or would like to know if the program can perform a function that isn't listed, you can read our&nbsp;<a href="https://mathgen.stats.ox.ac.uk/impute/impute_v2.html#faq">FAQ</a>&nbsp;or submit a question to our&nbsp;<a href="https://mathgen.stats.ox.ac.uk/impute/impute_v2.html#mail_list">mail list</a>.</p>
<p>When you have learned the basic functionality of the program, you can use several features of this website to prepare your own analysis:</p>
<ul>
<li>Learn about&nbsp;<a href="https://mathgen.stats.ox.ac.uk/impute/impute_v2.html#best_practices">best practices</a>&nbsp;for imputation.</li>
<li>Download&nbsp;<a href="https://mathgen.stats.ox.ac.uk/impute/impute_v2.html#reference">reference data</a>&nbsp;that you can use to impute genotypes in your study.</li>
<li>Look through a complete list of&nbsp;<a href="https://mathgen.stats.ox.ac.uk/impute/impute_v2.html#options">program options</a>.</li>
</ul><p>Address of the bookmark: <a href="https://mathgen.stats.ox.ac.uk/impute/impute_v2.html" rel="nofollow">https://mathgen.stats.ox.ac.uk/impute/impute_v2.html</a></p>]]></description>
	<dc:creator>Jit</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/29656/statistics-and-probability</guid>
	<pubDate>Tue, 08 Nov 2016 07:34:25 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/29656/statistics-and-probability</link>
	<title><![CDATA[Statistics and probability]]></title>
	<description><![CDATA[<h3><span>Topics</span></h3>
<div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/displaying-describing-data">Displaying and describing data</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/modeling-distributions-of-data">Modeling distributions of data</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/describing-relationships-quantitative-data">Describing relationships in quantitative data</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/designing-studies">Designing studies</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/probability-library">Probability</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/random-variables-stats-library">Random variables</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/sampling-distributions-library">Sampling distributions</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/confidence-intervals-one-sample">Confidence intervals (one sample)</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/significance-tests-one-sample">Significance tests (one sample)</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/significance-tests-confidence-intervals-two-samples">Significance tests and confidence intervals (two samples)</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/inference-categorical-data-chi-square-tests">Inference for categorical data (chi-square tests)</a></div>
<div><a href="https://www.khanacademy.org/math/statistics-probability/advanced-regression-inference-transforming">Advanced regression (inference and tran</a></div>
</div><p>Address of the bookmark: <a href="https://www.khanacademy.org/math/statistics-probability" rel="nofollow">https://www.khanacademy.org/math/statistics-probability</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
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<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/29693/bioistats-online-course</guid>
	<pubDate>Thu, 10 Nov 2016 04:22:51 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/29693/bioistats-online-course</link>
	<title><![CDATA[Bioistats Online course]]></title>
	<description><![CDATA[<p><span>One of our primary focuses will be to develop an understanding of the various ways in which we can assign a probability to some chance event. We'll also learn the&nbsp;</span><strong>fundamental&nbsp;</strong><span><strong>properties of probability</strong>, investigate how probability behaves, and learn how to calculate the probability of a new chance event.</span></p>
<p><span>This book is handy understanding basic concepts.</span></p><p>Address of the bookmark: <a href="https://onlinecourses.science.psu.edu/stat414/node/287" rel="nofollow">https://onlinecourses.science.psu.edu/stat414/node/287</a></p>]]></description>
	<dc:creator>Abhimanyu Singh</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/29886/research-officer-at-national-tea-research-foundation</guid>
  <pubDate>Fri, 18 Nov 2016 04:19:24 -0600</pubDate>
  <link></link>
  <title><![CDATA[Research Officer at National Tea Research Foundation]]></title>
  <description><![CDATA[
<p>National Tea Research Foundation (NTRF) a registered body, requires qualified and experienced agricultural research scientist for contractual appointment as per details below :</p>

<p>Post Research Officer, NTRF, Kolkata</p>

<p>Essential Post Graduate degree in Life Science having special paper in Bioinformatics. Post Graduate degree in Bioinformatics.</p>

<p>Desirable Ph. D. in the area of computational biology or bioinformatics.</p>

<p>Job Experience Work experience on database development, capable to work independently and efficient in bioinformatics related project.</p>

<p>Job Responsibility</p>

<p>To develop database on various aspects of tea research.</p>

<p>Screening of the In-house projects of NTRF at the preliminary level.</p>

<p>Review and evaluation of In-house projects of NTRF. Technical monitoring of the In-house projects of NTRF.</p>

<p>Reviewing the final technical report of the In-house projects of NTRF.</p>

<p>Putting-up of same proposals for taking approval and sanction of the competent authority.</p>

<p>Physical and technical verification of the In-house projects of NTRF.</p>

<p>To assist in organizing seminars / workshops / meetings etc.</p>

<p>Interested candidate may appear for walk-in Interview on 17 th November, 2016</p>

<p>More Info :</p>

<p>http://www.teaboard.gov.in/pdf/Recruitment_for_the_post_of_Research_Officer_pdf7538.pdf</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/29992/spines</guid>
	<pubDate>Mon, 28 Nov 2016 05:33:26 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/29992/spines</link>
	<title><![CDATA[Spines]]></title>
	<description><![CDATA[<p><a href="https://www.broadinstitute.org/ftp/distribution/software/spines/"><em>Spines</em></a>&nbsp;is a collection of software tools, developed and used by the Vertebrate Genome Biology Group at the Broad Institute. It provides basic data structures for efficient data manipulation (mostly genomic sequences, alignments, variation etc.), as well as specialized tool sets for various analyses. It also features three sequence alignment packages:&nbsp;<em>Satsuma,</em>&nbsp;a highly parallelized program for high-sensitivity, genome-wide synteny;&nbsp;<em>Papaya,</em>&nbsp;an all-purpose alignment tool for less diverged sequences; and&nbsp;<em>SLAP,</em>&nbsp;a context-sensitive local aligner for diverged sequences with large gaps.</p>
<p>Access&nbsp;<em>Spines</em>&nbsp;<a href="https://www.broadinstitute.org/ftp/distribution/software/spines/">here</a>.</p><p>Address of the bookmark: <a href="https://www.broadinstitute.org/genome-sequencing-and-analysis/spines" rel="nofollow">https://www.broadinstitute.org/genome-sequencing-and-analysis/spines</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/30027/dbt-india</guid>
	<pubDate>Sun, 04 Dec 2016 22:30:37 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/30027/dbt-india</link>
	<title><![CDATA[DBT India]]></title>
	<description><![CDATA[<p>Latest announcement on DBT India.&nbsp;</p>
<p>Calls</p>
<p>Events</p>
<p>Projects</p>
<p>Jobs</p>
<p>&nbsp;</p><p>Address of the bookmark: <a href="http://www.dbtindia.nic.in/out-reach/latest-announcements/" rel="nofollow">http://www.dbtindia.nic.in/out-reach/latest-announcements/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/30153/e-mem-efficient-computation-of-maximal-exact-matches</guid>
	<pubDate>Thu, 15 Dec 2016 09:30:43 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/30153/e-mem-efficient-computation-of-maximal-exact-matches</link>
	<title><![CDATA[E-MEM: Efficient computation of Maximal Exact Matches]]></title>
	<description><![CDATA[<p>E-MEM is a C++/OpenMP program designed to efficiently compute MEMs between large genomes. See the README file for instructions on how to use E-MEM.&nbsp;<br><br>E-MEM source code</p>
<p>The source code can be downloaded&nbsp;<a href="http://www.csd.uwo.ca/~ilie/E-MEM/e-mem.zip">here</a>.&nbsp;<br><br>If you use E-MEM, please cite:</p>
<ul>
<li>N. Khiste, L. Ilie, E-MEM: Efficient computation of Maximal Exact Matches for very large genomes,&nbsp;<a href="http://bioinformatics.oxfordjournals.org/content/31/4/509.short">Bioinformatics</a>&nbsp;<strong>31</strong>(4) (2015) 509 -- 514.</li>
</ul>
<p>For any questions, please contact Lucian Ilie:&nbsp;<a href="mailto:ilie@uwo.ca">ilie@uwo.ca</a>&nbsp;</p><p>Address of the bookmark: <a href="http://www.csd.uwo.ca/~ilie/E-MEM/" rel="nofollow">http://www.csd.uwo.ca/~ilie/E-MEM/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
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	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/30212/pear</guid>
	<pubDate>Mon, 19 Dec 2016 09:28:30 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/30212/pear</link>
	<title><![CDATA[PEAR]]></title>
	<description><![CDATA[<p><strong>PEAR</strong>&nbsp;is an ultrafast, memory-efficient and highly accurate pair-end read merger. It is fully parallelized and can run with as low as just a few kilobytes of memory.</p>
<p>PEAR evaluates all possible paired-end read overlaps and without requiring the target fragment size as input. In addition, it implements a statistical test for minimizing false-positive results. Together with a highly optimized implementation, it can merge millions of paired end reads within a couple of minutes on a standard desktop computer.</p><p>Address of the bookmark: <a href="http://sco.h-its.org/exelixis/web/software/pear/doc.html" rel="nofollow">http://sco.h-its.org/exelixis/web/software/pear/doc.html</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/30355/meme-suite</guid>
	<pubDate>Fri, 23 Dec 2016 08:49:55 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/30355/meme-suite</link>
	<title><![CDATA[MEME suite]]></title>
	<description><![CDATA[<p>Motif based sequence analysis suits&nbsp;</p>
<p>The MEME Suite allows the biologist to discover novel motifs in collections of unaligned nucleotide or protein sequences, and to perform a wide variety of other motif-based analyses.</p>
<p>The MEME Suite supports motif-based analysis of DNA, RNA and protein sequences. It provides motif discovery algorithms using both probabilistic (MEME) and discrete models (MEME), which have complementary strengths. It also allows discovery of motifs with arbitrary insertions and deletions (GLAM2). In addition to motif discovery, the MEME Suite provides tools for scanning sequences for matches to motifs (FIMO, MAST and GLAM2Scan), scanning for clusters of motifs (MCAST), comparing motifs to known motifs (Tomtom), finding preferred spacings between motifs (SpaMo), predicting the biological roles of motifs (GOMo), measuring the positional enrichment of sequences for known motifs (CentriMo), and analyzing ChIP-seq and other large datasets (MEME-ChIP).</p>
<p>The MEME Suite is comprised of a collection of tools that work together, as shown below. Not all the tools are available as webservices, so to get the full power of the MEME Suite you will need to&nbsp;<a href="http://meme-suite.org/doc/download.html">download</a>&nbsp;and&nbsp;<a href="http://meme-suite.org/doc/install.html">install</a>&nbsp;a local copy of the software. To see what has changed recently you can peruse the&nbsp;<a href="http://meme-suite.org/doc/release-notes.html">release notes</a>.</p>
<p>http://meme-suite.org/</p><p>Address of the bookmark: <a href="http://meme-suite.org/" rel="nofollow">http://meme-suite.org/</a></p>]]></description>
	<dc:creator>Bulbul</dc:creator>
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