v0.1.5

• !!MAJOR: fix bug with hom_alt alias for alts == 2. Since v0.1.3, hom_alt would not get set to false for samples, variants after being set once. coding using e.g. kid.alts == 2 is not affected by this bug.
• update wiki to simplify rare disease analysis.
• tune javascript in my.js and rare-disease expressions so that many analyses will run
  better than twice as fast.
• [expr] add --skip-non-variable which further improves speed by not evaluating javascript for a trio if all members are hom-ref or unknown (but can the same variant will
  still be evlauated for trios with at least 1 sample that has a variant at that site.
• [compound-het] major speed increase for large cohorts.
• [compound-het] remove -i/--index option as this is now discovered from the header for the CSQ/BCSQ field.

binaries and docker

• 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.

users can also use slivar via docker at brentp/slivar:v0.1.5

gnotate annotation files

the gnotation files for fast annotation remain unchanged except for the addition of topmed.
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 (updated in release v0.1.2) here

• spliceai scores (maximum value of the 4 scores in spliceai) here

• topmed allele frequencies (via dbsnp) these can be used with INFO.topmed_af. Useful when analyzing data in hg38 because some variants in hg38 are not visible in GRCh37