genotypeAffy: Genotype Affymetrix CEL files

In benilton/crlmm: Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arrays

Genotype Affymetrix CEL files

Description

Assign diallelic genotypes at polymorphic markers

Usage

genotypeAffy(cnSet, SNRMin = 5, recallMin = 10, recallRegMin = 1000, gender = NULL, badSNP = 0.7, returnParams = TRUE, verbose = TRUE)

Arguments

cnSet	An object of class CNSet
SNRMin	See crlmm
recallMin	See crlmm
recallRegMin	See crlmm
gender	See crlmm
badSNP	See crlmm
returnParams	See crlmm
verbose	Logical.

Details

Wrapper for crlmm genotyping.

Value

Returns logical. SNP genotypes and confidence scores are written to ff_matrix objects.

Author(s)

R.Scharpf

See Also

crlmm, calls, confs

benilton/crlmm documentation built on June 10, 2025, 8:13 p.m.