Crate rsomics_plink_homozyg 

PLINK1 --homozyg: runs of homozygosity via the scanning-window algorithm.

A window of window_snp consecutive variants slides one variant at a time. A window is a hit when it holds at most window_het heterozygous and at most window_missing missing calls. Each variant is “in a homozygous segment” when the fraction of windows covering it that are hits is at least window_threshold. Maximal stretches of in-segment variants on a chromosome become candidate runs, split wherever consecutive variants lie more than gap kb apart, then kept only when they clear snp, kb, and density (kb-per-variant ceiling).

Structs

IndivRow

Params

Roh

SampleRoh

SummaryRow

Per-variant case/control tallies for the .hom.summary report, in .bim order.

Functions

homozyg

Scan every sample for runs of homozygosity.

indiv_rows

summary_rows

write_hom

write_indiv

write_summary