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@RoanKanninga RoanKanninga released this Mar 30, 2017 · 813 commits to master since this release

Regular pipeline

  • Gavin output name is smaller
  • Fill in complete path to external samples in samplesheet when running external samples

GoNL first version

  • gonl workflow
  • gonl parameters file

new protocols:

TrimAdapters Trimming of Illumina adapter
BaseRecalibrator prepare BQSR step
Base Quality Score Recalibration rescoring base qualities
VerifyBamID Check if the bam not is contanimated or that there was a sample swap
PhaseByTransmission Trio aware phasing

Assets 2