v0.2.1

v0.2.1

• fix hover in html
• add --unknown flag for somalier relate to set unknown genotypes to hom-ref (useful when merging single-sample VCFs).
• change sites to be alphabetical by allele so that they are the same between genome builds
• add version to .somalier files created with extract -- these will not be compatible with those made with v0.2.0. I don't
  forsee a backwards incompatible change like this one in the near future.
• sites files for hg38 and GRCh37 are compatible. That is, we can extract sites from bams or vcfs from samples aligned to GRCh37
  reference and accurately calculate relatedness on files extracted from samples aligned to hg38.
• better HTML performance for large numbers of samples by sub-sampling individiuals that are expected to be unrelated and that
  have a calculated relatedness < 0.09.
• add a depthview sub-command to plot the depth of each sample along each chromosome.
• much nicer html and several fixes thanks to Joe Brown

Install

This release comes with 2 linux binaries:

• somalier_static is a completely static binary and the recommended way to run somalier; just wget, chmod+x (get a sites file) and go.
• somalier_shared requires htslib (and libhts.so). use this binary if you need to access S3 or https files.

sites files

These sites files are build-specific, but as of this release, once the sites are extracted, the resulting somalier files can be used to compare samples even across genome builds.

sites.hg19.vcf.gz
sites.hg38.nochr.vcf.gz
sites.GRCh37.vcf.gz
sites.hg38.vcf.gz

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