Difference between revisions of "Nescent ngs 2011:Notebook/nescent ngs 2011"

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(Welcome!)
m (Notes)
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* Alignment [http://www.massgenomics.org/short-read-aligners see this helpful post]
 
* Alignment [http://www.massgenomics.org/short-read-aligners see this helpful post]
 
**[http://bowtie-bio.sourceforge.net/index.shtml Bowtie]
 
**[http://bowtie-bio.sourceforge.net/index.shtml Bowtie]
**[http://bio-bwa.sourceforge.net/ BWA]
+
**[http://bio-bwa.sourceforge.net/ BWA] - Burrows-Wheeler Aligner, fast and robust
 
**[http://www.novocraft.com/main/index.php Novoalign] - primarily useful for resequencing (i.e. aligning against a very similar reference genome)
 
**[http://www.novocraft.com/main/index.php Novoalign] - primarily useful for resequencing (i.e. aligning against a very similar reference genome)
 
**[http://soap.genomics.org.cn/soapaligner.html SOAPaligner/SOAP2]  
 
**[http://soap.genomics.org.cn/soapaligner.html SOAPaligner/SOAP2]  

Revision as of 16:24, 20 September 2011

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Welcome!

  • Share notes and comments from the course and beyond!
  • Nescent hosted course materials are here
  • Here's a nice overview of a basic alignment and variant calling workflow based on SAMtools and GATK

Notes

Please add notes by topic:

Useful Links


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