Somatic short variant discovery (SNVs + Indels)
Best Practices Workflows | Created 2018-01-07 | Last updated 2018-03-06

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Identify somatic short variants (SNVs + Indels) in a tumor-normal for an individual sample. Requires an appropriate Panel of Normals (PON).

Reference Implementations

Pipeline Summary Notes Github FireCloud
Somatic short variants tumor-normal pair T-N BAMs to VCF universal yes b37
Somatic short variants PON creation Normal BAMs to PON universal yes pending

Documentation for these workflows is in development.

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