This release adds new features and fix some minor bugs
The addition of the new features required to modify and update the germline
pre-processing scripts to implement dragen
VCFs pre-processings
New Features
- processing
VCF
from two new tools:dragen_snv
anddragen_sv
; These tools are part of theIllumina Dragen Pipeline
; - remove duplicated lines from
dragen_sv
tool using an external tool implemented in python3 (main_dedup_sv.py ; needs to be in the PATH)
Bugs fixed
- fix keyError bug: replace data[0] with data[tool]
- replace cp with rsync
- check the
step
value that update the counter is correctly assigned when the total count of variant from the union of all the VCF is less than 10 variants - Fix
indels
filtering out with Phaser; Encountered edge cases; fix issue #27.