Previously, pedigree creation passed the cohort information through a transient yaml step where parents were set implicitly based on order. There was a typo in this that swapped mom and dad, and assumed that single parental info always came from mom. Pedigree is now created directly from cohort json structure and mom and dad are set explicitly. Closes #129 (@juniper-lake)
Previously, the svpack tagzygosity function annotated variants with hom/het for all samples. Now, it only annotates variants with zygosity for affected samples. The svpack filtered/annotated TSV will only include variants that are included in at least one affected sample. (@amwenger)
svpack tagzygosityfunction annotated variants with hom/het for all samples. Now, it only annotates variants with zygosity for affected samples. The svpack filtered/annotated TSV will only include variants that are included in at least one affected sample. (@amwenger)