Nescent ngs 2011:Notebook/nescent ngs 2011

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* Assembly, de novo
* Assembly, de novo
**[http://soap.genomics.org.cn/soapdenovo.html SOAPdenovo]
**[http://soap.genomics.org.cn/soapdenovo.html SOAPdenovo]
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* Alignment [http://www.massgenomics.org/short-read-aligners see this helpful post]
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* 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] - Burrows-Wheeler Aligner, fast and robust
**[http://bio-bwa.sourceforge.net/ BWA] - Burrows-Wheeler Aligner, fast and robust

Revision as of 18:27, 20 September 2011

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  • Nescent hosted course materials are here
  • Here's a nice overview of a basic alignment and variant calling workflow based on SAMtools and GATK

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