Updates to GeneralCallingPipeline

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-- GCP: use 1% bad variants and 1000 min bad variants
-- Don't use project consensus for SNP recal
-- Update GCP to assess hapmap and omni sensitivity
-- Update the Eval command to use the right hapmap and omni comparisons (per sample)
-- Update GCP to use current best filtering parameters
  -- SNPs: QD, FS, DP, ReadPosRankSum, MQRankSum
  -- indels: FS, DP, ReadPosRankSum, MQRankSum

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This commit is contained in:

Mark DePristo 2013-04-04 17:57:20 -04:00

parent ff430c821e

commit d5d87c50e6

Show all changes Ignore whitespace when comparing lines Ignore changes in amount of whitespace Ignore changes in whitespace at EOL

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