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Revision as of 17:49, 5 November 2012
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Back to the beginning [http://genome.sph.umich.edu/wiki/Pipelines]
Back to the beginning [http://genome.sph.umich.edu/wiki/Pipelines]
The Variant Calling Pipeline (UMAKE) takes recalibrated BAM files and detects SNPs and calls their genotypes, producing VCF files.
== Input Data:==
*Aligned/Processed/Recalibrated BAM files
*Index file containing Sample IDs & BAM file names
*Reference files
*(Optional) Configuration file to override default options
=== BAM files ===
=== Index file ===
=== Reference Files ===
=== Configuration File ===
== Running ==
Running umake is straightforward:
Running umake is straightforward:
