makeclumps.custom.MAF: Function to make the SNP clumps at different Pvalue cutoffs

Description Usage Arguments See Also

Description

Function to make the SNP clumps at different Pvalue cutoffs

Usage

1
2
makeclumps.custom.MAF(trait, clumpfile, outfilename, MAF = 0.05, RSQ = 0.01,
  DIST = 1000, plink = F)

Arguments

trait

Trait to compare SCD results to

clumpfile

File with rsIDs and pvalues for trait of interest. Header MUST be SNP and pvalue

outfilename

Filename for all output files, will be followed by alpha cutoff value

MAF

Maf cutoff to be used for filtering

plink

logical If plink should be used instead of plink2 for clumping. Default (false)

See Also

gtx, grs.plot


foramashar/fashaR documentation built on May 16, 2019, 1:49 p.m.