afs_to_counts: Compute count blocks and write them to disk

In uqrmaie1/admixtools: Inferring demographic history from genetic data

Compute count blocks and write them to disk

Description

This is intended for computing allele count data for a large number of individuals, too many to do everything in working memory. It assumes that the allele frequencies have already been computed and are stored in .rds files, split into consecutive blocks for a set of individuals.

Usage

afs_to_counts(
  genodir,
  outdir,
  chunk1,
  chunk2,
  overwrite = FALSE,
  verbose = TRUE
)

Arguments

genodir	Directory with genotype files split in chunks created by extract_afs (with each individual its own population).
outdir	Directory where allele count data will be stored
chunk1	Index of the first chunk of individuals
chunk2	Index of the second chunk of individuals
overwrite	Overwrite existing files (default FALSE)
verbose	Print progress updates

See Also

extract_counts Does the same thing in one step for smaller data.

uqrmaie1/admixtools documentation built on March 20, 2024, 8:24 a.m.