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call-gSV Manta and Regenotyping additions
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@timothyjsanders timothyjsanders released this 02 Jul 15:35
· 111 commits to main since this release
v3.0.0
314cad6
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Learn about vigilant mode.

Added

  • Added ability to call germline SVs with Manta
  • Added parameters to control which SV caller is used (run_delly & run_manta)
  • Added pipeline version from manifest to pipeline logging output
  • Added CNV VCF outputs to QC processes
  • Added two new processes to regenotype SVs or CNVs with Delly (regenotype_gSV_Delly & regenotype_gCNV_Delly)
  • Added parameters and input mode to control which type of regenotyping is run (mode, run_regenotyping & run_discovery)

Changed

  • Changed output directories to correspond with tool name casing
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