Hi, I have Illumina data generated from Mitochondrial DNA by amplicon approach. I need to perform variant calling and annotation. Custom annotations like population allele …

SnpEff only provides LoF annotation, as many other annotation tools. Is there a database with GoF annotations for SNPs, indels? If not, where can I …

Hi every one i need help on accurate complete protocol on analyzing long non coding RNA illumina NGS data starting from QC parameters to DE …

<p>any one used QC-Chain tool for Quality check of NGS data.</p> <p>how accurate is the tool to check contamination of seq data?</p> <p>Need help.</p> <p>Thanks</p>

<p>Hey i have checked in <a href="http://seqanswers.com/wiki/Software/list">http://seqanswers.com/wiki/Software/list</a> regarding tool to detect no of cells covered in RNA-seq analysis. But couldn&#39;t get information.</p> <p>Can any one …

<p>I read the official instructions in galaxy about this question but still can't get aware of it. Hope someone can help. <a href='https://wiki.galaxyproject.org/Admin/Config/ToolDependencies'>https://wiki.galaxyproject.org/Admin/Config/ToolDependencies</a></p> <p>I got …

<p>Has anybody compiled a list of tools available for HiC analysis? I know about the <a href='https://bitbucket.org/mirnylab/mirnylib'>Mirnylib</a>, the Homer, and the <a href='https://github.com/HiC-inspector/HiC-inspector'>HiC Inspector</a>. But …

<p>UCSC has published its own variant annotation and prioritizing tool called <a href='http://genome.ucsc.edu/cgi-bin/hgVai?hgsid=342830733'>VAI</a>, has anyone tried it ? compared with annovar?</p>

I would like to introduce a web-based variant annotation tool (http://jjwanglab.org/snvrap) which provides comprehensive local database of human genome variants with a user-friendly web page …

<p>I have resequenced a target region in depth and called with samtools with default parameters (except depth). I find the calls to be pretty inaccurate.</p> …