analyze: Correction of Genomes in R

In Chris1221/coR-ge: An R package for the Examination of Multiple Correction Methodologies in Accurate Genomic Environments.

Description

Software for the Examination of Multiple Correction Methodologies in Accurate Genomic Environments

Usage

analyze(i = double(), j = double(), mode = "default",
  path.base = "/scratch/hpc2862/CAMH/perm_container/container_",
  summary.file = "/scratch/hpc2862/CAMH/perm_container/snp_summary2.out",
  output = "~/repos/coR-ge/data/test_run2.txt", test = TRUE, safe = TRUE,
  local = FALSE, h2 = 0.45, pc = 0.5, pnc = 0.5, nc = 1000,
  gen = NULL, summary = summary, maf = FALSE, maf_range = NULL)

Arguments

i	i index.
j	j index.
path.base	Base of the path.
summary.file	Path to summary file.
output	Output stream to write to.
test	testing (only read one gen file)
safe	Don't delete files
h2	Proportion of heritability explained by causal SNPS
pc	Proportion of causal SNPs in the second strata
pnc	Proportion of noncausal SNPs in the second strata
nc	Number of causal SNPs
gen	Gen matrix if local
summary	Summary file if preread
maf	Maf or no
maf_range	MAF range

Value

Flat file at specified path.

Chris1221/coR-ge documentation built on May 6, 2019, 11:18 a.m.