Added -gtType argument to AssessNA12878 to stratify assessment based on true genotype call in NA12878 (or input call if the former is not in KB).

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Story:

  https://www.pivotaltracker.com/story/show/75028590

Changes:

  Added the possibility of indicating the genotype type to consider (with argument [-gtType TYPE]*, where TYPE is HET, HOM_REF or HOM_VAR)
  Removed conditional Het evaluation based on input ploidy; now you need to use -gtType explictly.

Tests:

  Added integration tests to check on new argument (-gtType) behaviour in AssessNA12878KnowledgeBaseTest

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This commit is contained in:

Valentin Ruano-Rubio 2014-07-15 15:46:34 -04:00

parent 0798a4b768

commit 8c14609477

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

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