Tools for Genome Wide Association Studies


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Documentation for package ‘GWASTools’ version 1.51.0

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GWASTools-package Tools for Genome Wide Association Studies

-- A --

alleleFrequency Allelic frequency
allequal Test if two objects have the same elements
anomDetectBAF BAF Method for Chromosome Anomaly Detection
anomDetectLOH LOH Method for Chromosome Anomaly Detection
anomFilterBAF BAF Method for Chromosome Anomaly Detection
anomIdentifyLowQuality Identify low quality samples
anomSegmentBAF BAF Method for Chromosome Anomaly Detection
anomSegStats Calculate LRR and BAF statistics for anomalous segments
anomStatsPlot Calculate LRR and BAF statistics for anomalous segments
apartSnpSelection Random selection of SNPs
asSnpMatrix Utilities for snpStats
assocCoxPH Cox proportional hazards
assocRegression Association testing with regression
assocTestCPH Defunct Functions in Package 'GWASTools'
assocTestFisherExact Defunct Functions in Package 'GWASTools'
assocTestRegression Defunct Functions in Package 'GWASTools'
autosomeCode Accessors for variables in GenotypeData and IntensityData classes and their component classes
autosomeCode-method Class GdsGenotypeReader
autosomeCode-method Class GdsIntensityReader
autosomeCode-method Class GenotypeData
autosomeCode-method Class IntensityData
autosomeCode-method Class MatrixGenotypeReader
autosomeCode-method Class NcdfGenotypeReader
autosomeCode-method Class NcdfIntensityReader
autosomeCode-method Class SnpAnotationDataFrame
autosomeCode-method Class SnpAnotationSQLite

-- B --

BAFfromClusterMeans B Allele Frequency & Log R Ratio Calculation
BAFfromGenotypes B Allele Frequency & Log R Ratio Calculation
batchChisqTest Batch Effects of Genotyping
batchFisherTest Batch Effects of Genotyping

-- C --

centromeres Centromere base positions
centromeres.hg18 Centromere base positions
centromeres.hg19 Centromere base positions
centromeres.hg38 Centromere base positions
checkGenotypeFile Write genotypic calls and/or associated metrics to a GDS or netCDF file.
checkImputedDosageFile Create and check a GDS or NetCDF file with imputed dosages
checkIntensityFile Write genotypic calls and/or associated metrics to a GDS or netCDF file.
checkNcdfGds Convert between NetCDF and GDS format
chromIntensityPlot Plot B Allele Frequency and/or Log R Ratio, R or Theta values for samples by probe position on a chromosome
close-method Class GdsReader
close-method Class GenotypeData
close-method Class IntensityData
close-method Class NcdfReader
close-method Class ScanAnotationSQLite
close-method Class SnpAnotationSQLite
convertGdsNcdf Convert between NetCDF and GDS format
convertNcdfGds Convert between NetCDF and GDS format
convertVcfGds Defunct Functions in Package 'GWASTools'
createAffyIntensityFile Write genotypic calls and/or associated metrics to a GDS or netCDF file.
createDataFile Write genotypic calls and/or associated metrics to a GDS or netCDF file.
currentFilter Class GenotypeIterator
currentFilter-method Class GenotypeIterator

-- D --

dupDosageCorAcrossDatasets Functions to check discordance and allelic dosage correlation across datasets
duplicateDiscordance Duplicate discordance
duplicateDiscordanceAcrossDatasets Functions to check discordance and allelic dosage correlation across datasets
duplicateDiscordanceProbability Probability of duplicate discordance

-- E --

exactHWE Hardy-Weinberg Equilibrium testing

-- F --

findBAFvariance Find chromosomal areas with high BAlleleFreq (or LogRRatio) standard deviation

-- G --

gdsCheckImputedDosage Defunct Functions in Package 'GWASTools'
GdsGenotypeReader Class GdsGenotypeReader
GdsGenotypeReader-class Class GdsGenotypeReader
gdsImputedDosage Defunct Functions in Package 'GWASTools'
GdsIntensityReader Class GdsIntensityReader
GdsIntensityReader-class Class GdsIntensityReader
GdsReader Class GdsReader
GdsReader-class Class GdsReader
gdsSetMissingGenotypes Defunct Functions in Package 'GWASTools'
gdsSubset Write a subset of data in a GDS file to a new GDS file
gdsSubsetCheck Write a subset of data in a GDS file to a new GDS file
genoClusterPlot SNP cluster plots
genoClusterPlotByBatch SNP cluster plots
genoDataAsVCF Utility to write VCF file
GenotypeBlockIterator Class GenotypeIterator
GenotypeBlockIterator-class Class GenotypeIterator
GenotypeData Class GenotypeData
GenotypeData-class Class GenotypeData
GenotypeIterator Class GenotypeIterator
GenotypeIterator-class Class GenotypeIterator
genotypeToCharacter Convert number of A alleles to character genotypes
getAlleleA Accessors for variables in GenotypeData and IntensityData classes and their component classes
getAlleleA-method Class GdsGenotypeReader
getAlleleA-method Class GenotypeData
getAlleleA-method Class GenotypeIterator
getAlleleA-method Class SnpAnotationDataFrame
getAlleleA-method Class SnpAnotationSQLite
getAlleleB Accessors for variables in GenotypeData and IntensityData classes and their component classes
getAlleleB-method Class GdsGenotypeReader
getAlleleB-method Class GenotypeData
getAlleleB-method Class GenotypeIterator
getAlleleB-method Class SnpAnotationDataFrame
getAlleleB-method Class SnpAnotationSQLite
getAnnotation Accessors for variables in GenotypeData and IntensityData classes and their component classes
getAnnotation-method Class ScanAnotationDataFrame
getAnnotation-method Class ScanAnotationSQLite
getAnnotation-method Class SnpAnotationDataFrame
getAnnotation-method Class SnpAnotationSQLite
getAttribute Accessors for variables in GenotypeData and IntensityData classes and their component classes
getAttribute-method Class GdsReader
getAttribute-method Class NcdfReader
getBAlleleFreq Accessors for variables in GenotypeData and IntensityData classes and their component classes
getBAlleleFreq-method Class GdsIntensityReader
getBAlleleFreq-method Class IntensityData
getBAlleleFreq-method Class NcdfIntensityReader
getChromosome Accessors for variables in GenotypeData and IntensityData classes and their component classes
getChromosome-method Class GdsGenotypeReader
getChromosome-method Class GdsIntensityReader
getChromosome-method Class GenotypeData
getChromosome-method Class GenotypeIterator
getChromosome-method Class IntensityData
getChromosome-method Class MatrixGenotypeReader
getChromosome-method Class NcdfGenotypeReader
getChromosome-method Class NcdfIntensityReader
getChromosome-method Class SnpAnotationDataFrame
getChromosome-method Class SnpAnotationSQLite
getDimension Accessors for variables in GenotypeData and IntensityData classes and their component classes
getDimension-method Class GdsReader
getDimension-method Class NcdfReader
getDimensionNames Class NcdfReader
getDimensionNames-method Class NcdfReader
getGenotype Accessors for variables in GenotypeData and IntensityData classes and their component classes
getGenotype-method Class GdsGenotypeReader
getGenotype-method Class GenotypeData
getGenotype-method Class MatrixGenotypeReader
getGenotype-method Class NcdfGenotypeReader
getGenotypeSelection Accessors for variables in GenotypeData and IntensityData classes and their component classes
getGenotypeSelection-method Class GdsGenotypeReader
getGenotypeSelection-method Class GenotypeData
getGenotypeSelection-method Class GenotypeIterator
getGenotypeSelection-method Class MatrixGenotypeReader
getLogRRatio Accessors for variables in GenotypeData and IntensityData classes and their component classes
getLogRRatio-method Class GdsIntensityReader
getLogRRatio-method Class IntensityData
getLogRRatio-method Class NcdfIntensityReader
getMetadata Accessors for variables in GenotypeData and IntensityData classes and their component classes
getMetadata-method Class ScanAnotationDataFrame
getMetadata-method Class ScanAnotationSQLite
getMetadata-method Class SnpAnotationDataFrame
getMetadata-method Class SnpAnotationSQLite
getNodeDescription Accessors for variables in GenotypeData and IntensityData classes and their component classes
getNodeDescription-method Class GdsReader
getobj Get an R object stored in an Rdata file
getPosition Accessors for variables in GenotypeData and IntensityData classes and their component classes
getPosition-method Class GdsGenotypeReader
getPosition-method Class GdsIntensityReader
getPosition-method Class GenotypeData
getPosition-method Class GenotypeIterator
getPosition-method Class IntensityData
getPosition-method Class MatrixGenotypeReader
getPosition-method Class NcdfGenotypeReader
getPosition-method Class NcdfIntensityReader
getPosition-method Class SnpAnotationDataFrame
getPosition-method Class SnpAnotationSQLite
getQuality Accessors for variables in GenotypeData and IntensityData classes and their component classes
getQuality-method Class GdsIntensityReader
getQuality-method Class IntensityData
getQuality-method Class NcdfIntensityReader
getQuery Accessors for variables in GenotypeData and IntensityData classes and their component classes
getQuery-method Class ScanAnotationSQLite
getQuery-method Class SnpAnotationSQLite
getScanAnnotation Accessors for variables in GenotypeData and IntensityData classes and their component classes
getScanAnnotation-method Class GenotypeData
getScanID Accessors for variables in GenotypeData and IntensityData classes and their component classes
getScanID-method Class GdsGenotypeReader
getScanID-method Class GdsIntensityReader
getScanID-method Class GenotypeData
getScanID-method Class IntensityData
getScanID-method Class MatrixGenotypeReader
getScanID-method Class NcdfGenotypeReader
getScanID-method Class NcdfIntensityReader
getScanID-method Class ScanAnotationDataFrame
getScanID-method Class ScanAnotationSQLite
getScanVariable Accessors for variables in GenotypeData and IntensityData classes and their component classes
getScanVariable-method Class GenotypeData
getScanVariable-method Class IntensityData
getScanVariableNames Accessors for variables in GenotypeData and IntensityData classes and their component classes
getScanVariableNames-method Class GenotypeData
getScanVariableNames-method Class IntensityData
getSex Accessors for variables in GenotypeData and IntensityData classes and their component classes
getSex-method Class GenotypeData
getSex-method Class IntensityData
getSex-method Class ScanAnotationDataFrame
getSex-method Class ScanAnotationSQLite
getSnpAnnotation Accessors for variables in GenotypeData and IntensityData classes and their component classes
getSnpAnnotation-method Class GenotypeData
getSnpID Accessors for variables in GenotypeData and IntensityData classes and their component classes
getSnpID-method Class GdsGenotypeReader
getSnpID-method Class GdsIntensityReader
getSnpID-method Class GenotypeData
getSnpID-method Class GenotypeIterator
getSnpID-method Class IntensityData
getSnpID-method Class MatrixGenotypeReader
getSnpID-method Class NcdfGenotypeReader
getSnpID-method Class NcdfIntensityReader
getSnpID-method Class SnpAnotationDataFrame
getSnpID-method Class SnpAnotationSQLite
getSnpVariable Accessors for variables in GenotypeData and IntensityData classes and their component classes
getSnpVariable-method Class GenotypeData
getSnpVariable-method Class GenotypeIterator
getSnpVariable-method Class IntensityData
getSnpVariableNames Accessors for variables in GenotypeData and IntensityData classes and their component classes
getSnpVariableNames-method Class GenotypeData
getSnpVariableNames-method Class IntensityData
getVariable Accessors for variables in GenotypeData and IntensityData classes and their component classes
getVariable-method Class GdsGenotypeReader
getVariable-method Class GdsIntensityReader
getVariable-method Class GdsReader
getVariable-method Class GenotypeData
getVariable-method Class IntensityData
getVariable-method Class NcdfGenotypeReader
getVariable-method Class NcdfIntensityReader
getVariable-method Class NcdfReader
getVariable-method Class ScanAnotationDataFrame
getVariable-method Class ScanAnotationSQLite
getVariable-method Class SnpAnotationDataFrame
getVariable-method Class SnpAnotationSQLite
getVariableNames Accessors for variables in GenotypeData and IntensityData classes and their component classes
getVariableNames-method Class GdsReader
getVariableNames-method Class NcdfReader
getVariableNames-method Class ScanAnotationDataFrame
getVariableNames-method Class ScanAnotationSQLite
getVariableNames-method Class SnpAnotationDataFrame
getVariableNames-method Class SnpAnotationSQLite
getX Accessors for variables in GenotypeData and IntensityData classes and their component classes
getX-method Class GdsIntensityReader
getX-method Class IntensityData
getX-method Class NcdfIntensityReader
getY Accessors for variables in GenotypeData and IntensityData classes and their component classes
getY-method Class GdsIntensityReader
getY-method Class IntensityData
getY-method Class NcdfIntensityReader
gwasExactHW Defunct Functions in Package 'GWASTools'
GWASTools Tools for Genome Wide Association Studies
GWASTools-defunct Defunct Functions in Package 'GWASTools'

-- H --

hasBAlleleFreq Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasBAlleleFreq-method Class GdsIntensityReader
hasBAlleleFreq-method Class IntensityData
hasBAlleleFreq-method Class NcdfIntensityReader
hasCoordVariable Class NcdfReader
hasCoordVariable-method Class NcdfReader
hasLogRRatio Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasLogRRatio-method Class GdsIntensityReader
hasLogRRatio-method Class IntensityData
hasLogRRatio-method Class NcdfIntensityReader
hasQuality Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasQuality-method Class GdsIntensityReader
hasQuality-method Class IntensityData
hasQuality-method Class NcdfIntensityReader
hasScanAnnotation Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasScanAnnotation-method Class GenotypeData
hasScanAnnotation-method Class IntensityData
hasScanVariable Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasScanVariable-method Class GenotypeData
hasScanVariable-method Class IntensityData
hasSex Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasSex-method Class GenotypeData
hasSex-method Class IntensityData
hasSex-method Class ScanAnotationDataFrame
hasSex-method Class ScanAnotationSQLite
hasSnpAnnotation Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasSnpAnnotation-method Class GenotypeData
hasSnpAnnotation-method Class IntensityData
hasSnpVariable Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasSnpVariable-method Class GenotypeData
hasSnpVariable-method Class IntensityData
hasVariable Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasVariable-method Class GdsReader
hasVariable-method Class GenotypeData
hasVariable-method Class IntensityData
hasVariable-method Class NcdfReader
hasVariable-method Class ScanAnotationDataFrame
hasVariable-method Class ScanAnotationSQLite
hasVariable-method Class SnpAnotationDataFrame
hasVariable-method Class SnpAnotationSQLite
hasX Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasX-method Class GdsIntensityReader
hasX-method Class IntensityData
hasX-method Class NcdfIntensityReader
hasY Accessors for variables in GenotypeData and IntensityData classes and their component classes
hasY-method Class GdsIntensityReader
hasY-method Class IntensityData
hasY-method Class NcdfIntensityReader
hetByScanChrom Heterozygosity rates by scan and chromosome
hetBySnpSex Heterozygosity by SNP and sex
HLA HLA region base positions
HLA.hg18 HLA region base positions
HLA.hg19 HLA region base positions
HLA.hg38 HLA region base positions

-- I --

ibdAreasDraw Plot theoretical and observed identity by descent values and assign relationships
ibdAssignRelatedness Plot theoretical and observed identity by descent values and assign relationships
ibdAssignRelatednessKing Plot theoretical and observed identity by descent values and assign relationships
ibdPlot Plot theoretical and observed identity by descent values and assign relationships
imputedDosageFile Create and check a GDS or NetCDF file with imputed dosages
IntensityData Class IntensityData
IntensityData-class Class IntensityData
intensityOutliersPlot Plot mean intensity and highlight outliers
iterateFilter Class GenotypeIterator
iterateFilter-method Class GenotypeIterator

-- K --

kingIBS0FSCI Plot theoretical and observed identity by descent values and assign relationships

-- L --

lastFilter Class GenotypeIterator
lastFilter-method Class GenotypeIterator
lastFilter<- Class GenotypeIterator
lastFilter<--method Class GenotypeIterator

-- M --

manhattanPlot Manhattan plot for genome wide association tests
MatrixGenotypeReader Class MatrixGenotypeReader
MatrixGenotypeReader-class Class MatrixGenotypeReader
MchromCode Accessors for variables in GenotypeData and IntensityData classes and their component classes
MchromCode-method Class GdsGenotypeReader
MchromCode-method Class GdsIntensityReader
MchromCode-method Class GenotypeData
MchromCode-method Class IntensityData
MchromCode-method Class MatrixGenotypeReader
MchromCode-method Class NcdfGenotypeReader
MchromCode-method Class NcdfIntensityReader
MchromCode-method Class SnpAnotationDataFrame
MchromCode-method Class SnpAnotationSQLite
meanIntensityByScanChrom Calculate Means and Standard Deviations of Intensities
meanSdByChromWindow Find chromosomal areas with high BAlleleFreq (or LogRRatio) standard deviation
medianSdOverAutosomes Find chromosomal areas with high BAlleleFreq (or LogRRatio) standard deviation
mendelErr Mendelian Error Checking
mendelList Mendelian Error Checking
mendelListAsDataFrame Mendelian Error Checking
minorAlleleDetectionAccuracy Functions to check discordance and allelic dosage correlation across datasets
missingGenotypeByScanChrom Missing Counts per Scan per Chromosome
missingGenotypeBySnpSex Missing Counts per SNP by Sex

-- N --

ncdfAddData Defunct Functions in Package 'GWASTools'
ncdfAddIntensity Defunct Functions in Package 'GWASTools'
ncdfCheckGenotype Defunct Functions in Package 'GWASTools'
ncdfCheckIntensity Defunct Functions in Package 'GWASTools'
ncdfCreate Defunct Functions in Package 'GWASTools'
NcdfGenotypeReader Class NcdfGenotypeReader
NcdfGenotypeReader-class Class NcdfGenotypeReader
ncdfImputedDosage Defunct Functions in Package 'GWASTools'
NcdfIntensityReader Class NcdfIntensityReader
NcdfIntensityReader-class Class NcdfIntensityReader
NcdfReader Class NcdfReader
NcdfReader-class Class NcdfReader
ncdfSetMissingGenotypes Defunct Functions in Package 'GWASTools'
ncdfSubset Defunct Functions in Package 'GWASTools'
ncdfSubsetCheck Defunct Functions in Package 'GWASTools'
nscan Accessors for variables in GenotypeData and IntensityData classes and their component classes
nscan-method Class GdsGenotypeReader
nscan-method Class GdsIntensityReader
nscan-method Class GenotypeData
nscan-method Class IntensityData
nscan-method Class MatrixGenotypeReader
nscan-method Class NcdfGenotypeReader
nscan-method Class NcdfIntensityReader
nscan-method Class ScanAnotationSQLite
nsnp Accessors for variables in GenotypeData and IntensityData classes and their component classes
nsnp-method Class GdsGenotypeReader
nsnp-method Class GdsIntensityReader
nsnp-method Class GenotypeData
nsnp-method Class IntensityData
nsnp-method Class MatrixGenotypeReader
nsnp-method Class NcdfGenotypeReader
nsnp-method Class NcdfIntensityReader
nsnp-method Class SnpAnotationSQLite

-- O --

open-method Class GdsReader
open-method Class GenotypeData
open-method Class IntensityData
open-method Class NcdfReader
open-method Class ScanAnotationSQLite
open-method Class SnpAnotationSQLite

-- P --

pasteSorted Paste two vectors sorted pairwise
pcaSnpFilters Regions of SNP-PC correlation to filter for Principal Component Analysis
pcaSnpFilters.hg18 Regions of SNP-PC correlation to filter for Principal Component Analysis
pcaSnpFilters.hg19 Regions of SNP-PC correlation to filter for Principal Component Analysis
pcaSnpFilters.hg38 Regions of SNP-PC correlation to filter for Principal Component Analysis
pedigreeCheck Testing for internal consistency of pedigrees
pedigreeDeleteDuplicates Remove duplicates from a pedigree
pedigreeMaxUnrelated Find a maximal set of unrelated individuals in a subset of a pedigree.
pedigreePairwiseRelatedness Assign relatedness from pedigree data
plinkCheck Utilities to create and check PLINK files
plinkToNcdf Defunct Functions in Package 'GWASTools'
plinkWrite Utilities to create and check PLINK files
pseudoautoIntensityPlot Plot B Allele Frequency and Log R Ratio for the X and Y chromosomes, overlaying XY SNPs
pseudoautosomal Pseudoautosomal region base positions
pseudoautosomal.hg18 Pseudoautosomal region base positions
pseudoautosomal.hg19 Pseudoautosomal region base positions
pseudoautosomal.hg38 Pseudoautosomal region base positions

-- Q --

qqPlot QQ plot for genome wide assocation studies
qualityScoreByScan Mean and median quality score for scans
qualityScoreBySnp Mean and median quality score for SNPs

-- R --

readWriteFirst Read and write the first n lines of a file
relationsMeanVar Mean and Variance information for full-sibs, half-sibs, first-cousins
resetIterator Class GenotypeIterator
resetIterator-method Class GenotypeIterator

-- S --

saveas Save an R object with a new name
ScanAnnotationDataFrame Class ScanAnotationDataFrame
ScanAnnotationDataFrame-class Class ScanAnotationDataFrame
ScanAnnotationSQLite Class ScanAnotationSQLite
ScanAnnotationSQLite-class Class ScanAnotationSQLite
sdByScanChromWindow Find chromosomal areas with high BAlleleFreq (or LogRRatio) standard deviation
setMissingGenotypes Write a new netCDF or GDS file, setting certain SNPs to missing
show-method Class GdsReader
show-method Class GenotypeData
show-method Class IntensityData
show-method Class MatrixGenotypeReader
show-method Class NcdfReader
show-method Class ScanAnotationSQLite
show-method Class SnpAnotationSQLite
simulateGenotypeMatrix Simulate Genotype or Intensity Matrix & Load into GDS/NetCDF File
simulateIntensityMatrix Simulate Genotype or Intensity Matrix & Load into GDS/NetCDF File
SnpAnnotationDataFrame Class SnpAnotationDataFrame
SnpAnnotationDataFrame-class Class SnpAnotationDataFrame
SnpAnnotationSQLite Class SnpAnotationSQLite
SnpAnnotationSQLite-class Class SnpAnotationSQLite
snpCorrelationPlot SNP correlation plot
snpFilter Class GenotypeIterator
snpFilter-method Class GenotypeIterator

-- V --

vcfCheck Utility to write VCF file
vcfWrite Utility to write VCF file

-- W --

writeAnnotation Accessors for variables in GenotypeData and IntensityData classes and their component classes
writeAnnotation-method Class ScanAnotationSQLite
writeAnnotation-method Class SnpAnotationSQLite
writeMetadata Accessors for variables in GenotypeData and IntensityData classes and their component classes
writeMetadata-method Class ScanAnotationSQLite
writeMetadata-method Class SnpAnotationSQLite

-- X --

XchromCode Accessors for variables in GenotypeData and IntensityData classes and their component classes
XchromCode-method Class GdsGenotypeReader
XchromCode-method Class GdsIntensityReader
XchromCode-method Class GenotypeData
XchromCode-method Class IntensityData
XchromCode-method Class MatrixGenotypeReader
XchromCode-method Class NcdfGenotypeReader
XchromCode-method Class NcdfIntensityReader
XchromCode-method Class SnpAnotationDataFrame
XchromCode-method Class SnpAnotationSQLite
XYchromCode Accessors for variables in GenotypeData and IntensityData classes and their component classes
XYchromCode-method Class GdsGenotypeReader
XYchromCode-method Class GdsIntensityReader
XYchromCode-method Class GenotypeData
XYchromCode-method Class IntensityData
XYchromCode-method Class MatrixGenotypeReader
XYchromCode-method Class NcdfGenotypeReader
XYchromCode-method Class NcdfIntensityReader
XYchromCode-method Class SnpAnotationDataFrame
XYchromCode-method Class SnpAnotationSQLite

-- Y --

YchromCode Accessors for variables in GenotypeData and IntensityData classes and their component classes
YchromCode-method Class GdsGenotypeReader
YchromCode-method Class GdsIntensityReader
YchromCode-method Class GenotypeData
YchromCode-method Class IntensityData
YchromCode-method Class MatrixGenotypeReader
YchromCode-method Class NcdfGenotypeReader
YchromCode-method Class NcdfIntensityReader
YchromCode-method Class SnpAnotationDataFrame
YchromCode-method Class SnpAnotationSQLite