plink_merge_list: Merge multiple PLINK datasets

In imbs-hl/imbs: Collection of functions used at the IMBS

Description

Merge multiple PLINK datasets

Usage

plink_merge_list(bfile, output.prefix, merge.list, merge.mode, ...,
  bed.file, bim.file, fam.file, exec = "plink2", num.threads, memory)

Arguments

bfile	[string] The basename of the binary PLINK files.
output.prefix	[string] The basename of the new binary PLINK files.
merge.list	[string] File listing other PLINK datasets to be merged.
merge.mode	[int] Merge mode.
...	[character] Additional arguments passed to PLINK.
bed.file	[string] Alternative to bfile interface. Specify bed, bim and fam files individually.
bim.file	[string] Alternative to bfile interface. Specify bed, bim and fam files individually.
fam.file	[string] Alternative to bfile interface. Specify bed, bim and fam files individually.
exec	[string] Path of PLINK executable.
num.threads	[int] Number of CPUs usable by PLINK. Default is determined by SLURM environment variables and at least 1.
memory	[int] Memory for PLINK in Mb. Default is determined by minimum of SLURM environment variables SLURM_MEM_PER_NODE and num.threads * SLURM_MEM_PER_CPU and at least 5000.

Details

See PLINK manual https://www.cog-genomics.org/plink/1.9/.

Value

Captured system output as character vector.

imbs-hl/imbs documentation built on Sept. 6, 2019, 11:05 p.m.