Summary
Refactor of original app to fix multiple issues and bring up to standard
Changes
- Rewrite from Bash app to Python
- Add full unit tests
- Correct values calculated:
- Remove alternate heterozygous variants and non autosome variants from the mean het and het:hom calculations
- Ensure duplicate variants are excluded from the bedtools intersect
- Correct label of X het:hom ratio
- Correct for calculating of alternate depth by correct indexing
- Fix errors in app for our standards
- Remove external dependencies