Changelog

6.2 (2023-03-30)

• Issue #7: new location for genepanels. Format of panels changed as they are created by the Gene Panel Builder
• Issue #4: Add variables for parental CNV_VCF files in annopipe
• Issue #5: Don't create per-base.bed.gz as it's not used
• Issue #10: Bug: basepipe fails for HG002 due to lacking variable
• Issue #11: Bug: QC outside threshold limits still passes as OK

6.1.1 (2023-01-24)

• don't change ownership or permission of files copied to preprocessed. TSD's cluster often fails on 'chown'

6.1 (2022-12-08)

• git backed config file defining svtools 0.1.4
• use rolling logging in executor
• msh2 caller for WGS samples
• PMS2 pseudegene masking for WGS samples
• Add contamination fraction filter to reduce sensitivity of the caller
• removed old, unused settings file config/nextflow-test.config