find large de novo deletions in parent-child duos.

v0.1.1

• better checks on missing parents/kids
• new sub-command duo-del that uses non-transmission in parent-child duos to find de novo structural deletions.
  e.g. a cluster of sites where kid is 0/0 and parent is 1/1 would be a candidate.
  see: https://github.com/brentp/slivar/wiki/finding-de-novo-deletions-in-parent-child-duos

for rare disease analysis: https://github.com/brentp/slivar/wiki/rare-disease#full-analysis-for-trios-with-unaffected-parents

binaries and annotation files

There are 2 binaries for this release. Both are 64bit linux binaries.

• slivar_static is a completely static binary. you can download it and use it without any other software. This is the recommended binary. You can wget, chmod +x and start analyzing.
• slivar_shared depends on a libhts.so. it has the advantage of allowing access to files on s3 or https if that is needed.

users can also use slivar via docker at brentp/slivar:v0.1.1

the gnotation files for fast annotation remain unchanged.
Users can create their own gnotation files with slivar make-gnotate, but we provide:

• gnomad for hg37 with AF popmax, numhomalts (total and controls only) here
• gnomad for hg38 with AF popmax, numhomalts (total and controls only) here
• spliceai scores (maximum value of the 4 scores in spliceai) here