# Genotype Calling (CRLMM) and Copy Number Analysis tool for Affymetrix SNP 5.0 and 6.0 and Illumina arrays.

## Documentation for package ‘crlmm’ version 1.6.6

- DESCRIPTION file.
- Overview of user guides and package vignettes; browse directory.
- Package NEWS.

## Help Pages

crlmm-package | Genotype Calling via CRLMM Algorithm
batch | Function to extract batch information.
batch-method | Function to extract batch information.
celDates | Extract dates from the cel file header
CNSetLM | CNSetLM class
CNSetLM-class | CNSetLM class
copyNumber-method | CNSetLM class
crlmm | Genotype oligonucleotide arrays with CRLMM
crlmm2 | Genotype oligonucleotide arrays with CRLMM
crlmmCopynumber | Locus- and allele-specific estimation of copy number
crlmmCopynumber2 | Locus- and allele-specific estimation of copy number
crlmmIllumina | Genotype Illumina Infinium II BeadChip data with CRLMM
ffdf-class | Miscellaneous classes
genotype | Preprocessing and genotyping of Affymetrix arrays.
genotype2 | Preprocessing and genotyping of Affymetrix arrays.
list-class | Miscellaneous classes
lM | CNSetLM class
lM-method | CNSetLM class
lM<--method | CNSetLM class
open-method | CNSetLM class
readIdatFiles | Reads Idat Files from Infinium II Illumina BeadChips
sample.CNSetLM | Dataset of class 'CNSetLM'
show-method | CNSetLM class
snprma | Preprocessing tool for SNP arrays.
snprma2 | Preprocessing tool for SNP arrays.
totalCopyNumber | Method for computing total copy number from either ff
totalCopyNumber-method | Method for computing total copy number from either ff
totalCopyNumber-methods | Method for computing total copy number from either ff
[-method | CNSetLM class