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	<title><![CDATA[BOL: Related items]]></title>
	<link>https://bioinformaticsonline.com/related/37586?offset=20</link>
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	<description><![CDATA[]]></description>
	
	<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/blog/view/36413/insert-data-through-ajax-into-mysql-database</guid>
	<pubDate>Wed, 25 Apr 2018 12:43:51 -0500</pubDate>
	<link>https://bioinformaticsonline.com/blog/view/36413/insert-data-through-ajax-into-mysql-database</link>
	<title><![CDATA[Insert data through ajax into MySql database.]]></title>
	<description><![CDATA[<p>Insert data through ajax into MySql database.1. Create form.php and copy below code into file.</p><blockquote><p>&lt;script type="text/javascript"&gt;<br /> <br /> $(document).ready(function(){<br /> $('#submit').click(function(){<br /> var name= $('#name').val();<br /> var email= $('#email').val();<br /> var sdatatring='name1='+ name +'&amp;email1='+ email;<br /> $.ajax({<br /> type:"POST",<br /> url:"insert.php",<br /> data:sdatatring,<br /> cache: false,<br /> success:function(result){<br /> alert(result);</p><p>}});</p><p>});</p><p>});<br />&lt;/script&gt;<br /> &lt;form method="post" action="" name="frm"&gt;<br /> Name:&lt;input type="text" name="name" id="name" value=""&gt;&lt;br&gt;<br /> Email:&lt;input type="text" name="email" id="email" value=""&gt;&lt;br&gt;<br /> &lt;input type="button" name="submt" id="submit" value="submit" /&gt;<br /> <br /> &lt;/form&gt;</p><p>2. Create insert.php and copy below code into file.<br /> &lt;?php<br />print_r($_POST);<br />$con=mysql_connect("localhost","root","");<br />mysql_select_db('dbname');<br />mysql_query('insert into tablename('colname')values(value)');<br /> ?&gt;<br />Note:You need to include jQuery library in form.php.</p></blockquote><p>More at</p><p>https://phpajaxhtml.blogspot.in/2018/03/insert-data-through-ajax-into-mysql.html</p>]]></description>
	<dc:creator>Ram Yash Pal</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/35148/mojolicious-a-next-generation-web-framework-for-the-perl-programming-language</guid>
	<pubDate>Fri, 12 Jan 2018 16:48:10 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/35148/mojolicious-a-next-generation-web-framework-for-the-perl-programming-language</link>
	<title><![CDATA[mojolicious: a next generation web framework for the Perl programming language.]]></title>
	<description><![CDATA[<p><span>Back in the early days of the web, many people learned Perl because of a wonderful Perl library called&nbsp;</span><a href="https://metacpan.org/module/CGI" target="_blank">CGI</a><span>. It was simple enough to get started without knowing much about the language and powerful enough to keep you going, learning by doing was much fun. While most of the techniques used are outdated now, the idea behind it is not. Mojolicious is a new endeavor to implement this idea using bleeding edge technologies.</span></p>
<h2>Features</h2>
<ul>
<li>An amazing&nbsp;<strong>real-time web framework</strong>, allowing you to easily grow single file prototypes into well-structured MVC web applications.
<ul>
<li>Powerful out of the box with RESTful routes, plugins, commands, Perl-ish templates, content negotiation, session management, form validation, testing framework, static file server, CGI/<a href="http://plackperl.org/" target="_blank">PSGI</a>&nbsp;detection, first class Unicode support and much more for you to discover.</li>
</ul>
</li>
<li>A powerful&nbsp;<strong>web development toolkit</strong>, that you can use for all kinds of applications, independently of the web framework.
<ul>
<li>Full stack HTTP and WebSocket client/server implementation with IPv6, TLS, SNI, IDNA, HTTP/SOCKS5 proxy, UNIX domain socket, Comet (long polling), Promises/A+, keep-alive, connection pooling, timeout, cookie, multipart and gzip compression support.</li>
<li>Built-in non-blocking I/O web server, supporting multiple event loops as well as optional pre-forking and hot deployment, perfect for building highly scalable web services.</li>
<li>JSON and HTML/XML parser with CSS selector support.</li>
</ul>
</li>
<li>Very clean, portable and object-oriented pure-Perl API with no hidden magic and no requirements besides Perl 5.24.0 (versions as old as 5.10.1 can be used too, but may require additional CPAN modules to be installed)</li>
<li>Fresh code based upon years of experience developing&nbsp;<a href="http://catalystframework.org/" target="_blank">Catalyst</a>, free and open source.</li>
<li>Hundreds of 3rd party&nbsp;<a href="https://metacpan.org/requires/distribution/Mojolicious">extensions</a>&nbsp;and high quality spin-off projects like the&nbsp;<a href="https://metacpan.org/pod/Minion">Minion</a>&nbsp;job queue.</li>
</ul>
<p>http://mojolicious.org/</p><p>Address of the bookmark: <a href="http://mojolicious.org/" rel="nofollow">http://mojolicious.org/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/30018/bipype</guid>
	<pubDate>Thu, 01 Dec 2016 08:47:38 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/30018/bipype</link>
	<title><![CDATA[bipype]]></title>
	<description><![CDATA[<p><span>Bipype is a very useful program, which prepare a lot of types of bioinformatics analyses. There are three input options: amplicons, WGS (whole genome sequences) and metatranscriptomic data. If amplicons are input data, then bipype does reconstruction and pairs merging. After that biodiversity is searching. There are two types of searching depending on the amplicons types (ITS or 16S). If WGS are chosen, then bipype finds the SA coordinates of the input reads and generates alignments in the SAM format given single-end reads, aligns reads to reference sequence(s). All of these analyses will be shown with Krona program, which allows to show hierarchical data with pie charts.</span></p><p>Address of the bookmark: <a href="https://readthedocs.org/projects/bipype/" rel="nofollow">https://readthedocs.org/projects/bipype/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

<item>
  <guid isPermaLink='true'>https://bioinformaticsonline.com/opportunity/view/41041/post-doc-computational-biology-bioinformatics-network-biology-data-science-ngs-mfd</guid>
  <pubDate>Sat, 15 Feb 2020 06:13:35 -0600</pubDate>
  <link></link>
  <title><![CDATA[Post Doc Computational Biology, Bioinformatics - Network Biology &amp; Data Science, NGS (m/f/d)]]></title>
  <description><![CDATA[
<p>https://www.jobvector.de/jobs-stellenangebote/biologie-life-sciences/forschung-entwicklung/post-doc-computational-biology-bioinformatics-network-biology-data-science-ngs-129867.html?suid=e522e9793b41817e52ac58d6963b94e2519920df</p>

<p>Requirements<br />Doctoral degree in Bioinformatics, Computational Biology, (Bio)physics/-mathematics, Biochemistry/Biology or similar with strong quantitative and numeric focus<br />Ability to numerically process complex and large data sets<br />Good programming skills (R/Bioconductor and/or Python preferred, Linux is a plus)<br />Experience in analyzing next-generation sequencing data sets using network biology<br />Scientific publication record in applied bioinformatics<br />Familiarity with single cell NGS analyses and other –omics techniques is a plus, but not essential</p>
]]></description>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/42033/seastar-systematic-evaluation-of-alternative-start-site-in-rna</guid>
	<pubDate>Thu, 13 Aug 2020 09:54:27 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/42033/seastar-systematic-evaluation-of-alternative-start-site-in-rna</link>
	<title><![CDATA[SEASTAR: Systematic Evaluation of Alternative STArt site in RNA]]></title>
	<description><![CDATA[<p>SEASTAR (Systematic Evaluation of Alternative STArt site in RNA) is a software package for Transcription Start Site (TSS) identification and quantification using only RNA-seq data. It assembles novel TSSs based only on RNA-Seq data and merges them with known TSSs from a public database. This package enables high-quality TSS identification that is comparable to the highly sophisticated CAGE technology. This package is particularly useful for finding novel TSSs that contribute to transcriptome complexity along with identifying differential promoter utilization.</p>
<p>version 1.0.0 - updates several descriptions and tests. To achieve v0.9.4, one can visit&nbsp;<a href="https://github.com/zhyqin/SEASTAR-0.9.4">https://github.com/zhyqin/SEASTAR-0.9.4</a>&nbsp;for download.</p><p>Address of the bookmark: <a href="https://github.com/Xinglab/SEASTAR" rel="nofollow">https://github.com/Xinglab/SEASTAR</a></p>]]></description>
	<dc:creator>BioStar</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/34420/rita-rapid-identification-of-high-confidence-taxonomic-assignments-for-metagenomic-data</guid>
	<pubDate>Mon, 27 Nov 2017 08:25:33 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/34420/rita-rapid-identification-of-high-confidence-taxonomic-assignments-for-metagenomic-data</link>
	<title><![CDATA[RITA: Rapid identification of high-confidence taxonomic assignments for metagenomic data]]></title>
	<description><![CDATA[<p>RITA is a standalone software package and Web server for taxonomic assignment of metagenomic sequence reads. By combining homology predictions from BLAST or UBLAST with compositional classifications from a Naive Bayes classifier, RITA is able to achieve very high accuracy on short reads. Unlike other hybrid approaches which combine these predictions for all sequences to be classified, RITA uses a pipeline to first identify cases where both types of classifier are in agreement, which constitute the highest-confidence set. Sequences not classified in this manner are subjected to a series of downstream classification steps.</p>
<p>This work has been accepted for publication:</p>
<p>MacDonald NJ, Parks DH, and Beiko RG. Rapid identification of taxonomic assignments. Accepted to&nbsp;<em>Nucleic Acids Research</em>&nbsp;April 4, 2012.</p>
<p>If you have any questions or bug reports, please let us know at &lt;beiko@cs.dal.ca&gt;.</p><p>Address of the bookmark: <a href="http://kiwi.cs.dal.ca/Software/RITA" rel="nofollow">http://kiwi.cs.dal.ca/Software/RITA</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/35272/biocircosjs-is-an-open-source-interactive-javascript-library-to-interactive-display-biological-data-on-the-web</guid>
	<pubDate>Fri, 19 Jan 2018 15:03:51 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/35272/biocircosjs-is-an-open-source-interactive-javascript-library-to-interactive-display-biological-data-on-the-web</link>
	<title><![CDATA[BioCircos.js is an open source interactive Javascript library to interactive display biological data on the web]]></title>
	<description><![CDATA[<p><a href="http://bioinfo.ibp.ac.cn/biocircos/index.php">BioCircos.js</a>&nbsp;is an open source interactive&nbsp;<code>Javascript</code>&nbsp;library which provides an easy way to interactive display biological data on the web. It implements a raster-based&nbsp;<code>SVG</code>&nbsp;visualization using the open source Javascript framework jquery.js. BioCircos.js is multiplatform and works in all major internet browsers (<strong>Internet Explorer</strong>,&nbsp;<strong>Mozilla Firefox</strong>,&nbsp;<strong>Google Chrome</strong>,&nbsp;<strong>Safari</strong>,&nbsp;<strong>Opera</strong>). Its speed is determined by the client&rsquo;s hardware and internet browser. For smoothest user experience, we recommend&nbsp;<strong>Google Chrome</strong>.</p>
<p>BioCircos.js provides&nbsp;<strong>SNP</strong>,&nbsp;<strong>CNV</strong>,&nbsp;<strong>HEATMAP</strong>,&nbsp;<strong>LINK</strong>,&nbsp;<strong>LINE</strong>,&nbsp;<strong>SCATTER</strong>,&nbsp;<strong>ARC</strong>,&nbsp;<strong>TEXT</strong>, and&nbsp;<strong>HISTGRAM</strong>modules to display genome-wide genetic variations (SNPs, CNVs and chromosome rearrangement), gene expression and biomolecule interactions. BioCircos.js also provides&nbsp;<strong>BACKGROUND</strong>&nbsp;module to display background and axis circles. Tooltips showing detailed information of SVG elements are also provided.</p>
<p><a href="http://bioinfo.ibp.ac.cn/biocircos/document/demo/pages/paper01.html">Demo</a></p><p>Address of the bookmark: <a href="http://bioinfo.ibp.ac.cn/biocircos/document/index.html" rel="nofollow">http://bioinfo.ibp.ac.cn/biocircos/document/index.html</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/37205/afterqc-automatic-filtering-trimming-error-removing-and-quality-control-for-fastq-data</guid>
	<pubDate>Fri, 29 Jun 2018 03:26:03 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/37205/afterqc-automatic-filtering-trimming-error-removing-and-quality-control-for-fastq-data</link>
	<title><![CDATA[AfterQC: Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data]]></title>
	<description><![CDATA[Automatic Filtering, Trimming, Error Removing and Quality Control for fastq data
AfterQC can simply go through all fastq files in a folder and then output three folders: good, bad and QC folders, which contains good reads, bad reads and the QC results of each fastq file/pair.
Currently it supports processing data from HiSeq 2000/2500/3000/4000, Nextseq 500/550, MiniSeq...and other Illumina 1.8 or newer formats

The author has reimplemented this tool in C++ with multithreading support to make it much faster. The new tool is called fastp and can be found at: https://github.com/OpenGene/fastp . If you prefer a C++ based tool, please use fastp instead.

https://github.com/OpenGene/AfterQC<p>Address of the bookmark: <a href="https://github.com/OpenGene/AfterQC" rel="nofollow">https://github.com/OpenGene/AfterQC</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/37672/seqmonka-tool-to-visualise-and-analyse-high-throughput-mapped-sequence-data</guid>
	<pubDate>Tue, 11 Sep 2018 04:39:38 -0500</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/37672/seqmonka-tool-to-visualise-and-analyse-high-throughput-mapped-sequence-data</link>
	<title><![CDATA[SeqMonk:A tool to visualise and analyse high throughput mapped sequence data]]></title>
	<description><![CDATA[<p>SeqMonk is a program to enable the visualisation and analysis of mapped sequence data. It was written for use with mapped next generation sequence data but can in theory be used for any dataset which can be expressed as a series of genomic positions. It's main features are:</p>
<ul>
<li>Import of mapped data from mapped data (BAM/SAM/bowtie etc)</li>
<li>Creation of data groups for visualisation and analysis</li>
<li>Visualisation of mapped regions against an annotated genome.</li>
<li>Flexible quantitation of the mapped data to allow comparisons between data sets</li>
<li>Statistical analysis of data to find regions of interest</li>
<li>Creation of reports containing data and genome annotation</li>
</ul><p>Address of the bookmark: <a href="http://www.bioinformatics.babraham.ac.uk/projects/seqmonk/" rel="nofollow">http://www.bioinformatics.babraham.ac.uk/projects/seqmonk/</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>
<item>
	<guid isPermaLink="true">https://bioinformaticsonline.com/bookmarks/view/38535/nanopack-visualizing-and-processing-long-read-sequencing-data</guid>
	<pubDate>Tue, 25 Dec 2018 21:20:50 -0600</pubDate>
	<link>https://bioinformaticsonline.com/bookmarks/view/38535/nanopack-visualizing-and-processing-long-read-sequencing-data</link>
	<title><![CDATA[NanoPack: visualizing and processing long-read sequencing data]]></title>
	<description><![CDATA[The NanoPack tools are written in Python3 and released under the GNU GPL3.0 License. The source code can be found at https://github.com/wdecoster/nanopack, together with links to separate scripts and their documentation. The scripts are compatible with Linux, Mac OS and the MS Windows 10 subsystem for Linux and are available as a graphical user interface, a web service at http://nanoplot.bioinf.be and command line tools.<p>Address of the bookmark: <a href="https://github.com/wdecoster/nanopack" rel="nofollow">https://github.com/wdecoster/nanopack</a></p>]]></description>
	<dc:creator>Jit</dc:creator>
</item>

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