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Revision as of 21:59, 5 November 2012
, 21:59, 5 November 2012no edit summary
The following Reference Files are required:
The following Reference Files are required:
*BWA Indexed Reference Files
* Reference File fasta files
** Configuration Name: BWA_REF
** Files required: .fa, -bs.umfa, .amb, .ann, .bwt, .pac, .rbwt, .rpac, .rsa, .sa
** Specify the basename for the BWA Indexed Reference File
*** Use <code>bin/bwa index ref.fa</code> if you need to generate the bwa reference files (.amb, .ann, .bwt, .pac, .rbwt, .rpac, .rsa, .sa)
** Need .bwt, .ann, amb,
*** If you don't have the -bs.umfa file, the software will try to create it in the same directory as the reference fasta.
** Configuration Name: FA_REF - specify the ref.fa/ref.fa.gz name
*
** Configuration Name: DBSNP_VCF
*
** Configuration Name: PLINK
*GC Content for QPLOT
=== Configuration File ===
=== Configuration File ===
