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Reference index for {aroma.affymetrix}

You are viewing package members beginning with the letter "A"

Function/ClassDescription
AffymetrixCdfFile.fromFile {aroma.affymetrix}Defines an AffymetrixCdfFile object from a CDF file
AffymetrixCdfFile.fromFile {aroma.affymetrix}Defines an AffymetrixCdfFile object from a CDF file
AffymetrixCdfFile.getAlleleCellPairs {aroma.affymetrix}Gets the cell indices of allele pairs
AffymetrixCdfFile.getAlleleProbePairs {aroma.affymetrix}Gets the indices of probepairs with the same pair of SNP nucleotides
AffymetrixCdfFile.getAlleleProbePairs3 {aroma.affymetrix}Gets the indices of probepairs with the same pair of SNP nucleotides
AffymetrixCdfFile.getCellIndices {aroma.affymetrix}Gets the cell indices unit by unit
AffymetrixCdfFile.getCnNames {aroma.affymetrix}Gets the names of the CN units
AffymetrixCdfFile.getGenomeInformation {aroma.affymetrix}Gets genome information for this chip type
AffymetrixCdfFile.getHeader {aroma.affymetrix}Gets the header of the CDF file
AffymetrixCdfFile.getSnpNames {aroma.affymetrix}Gets the names of the SNP units
AffymetrixCdfFile.getUnitNames {aroma.affymetrix}Gets the names of each unit
AffymetrixCdfFile.getUnitTypes {aroma.affymetrix}Gets the types of a set of units
AffymetrixCdfFile.groupUnitsByDimension {aroma.affymetrix}Groups units by dimensions
AffymetrixCdfFile.isPm {aroma.affymetrix}Checks which cells (probes) are PMs and not
AffymetrixCdfFile.isResequenceChip {aroma.affymetrix}Static method to check if a CDF is for a resequencing (CustomSeq) chip
AffymetrixCdfFile.isSnpChip {aroma.affymetrix}Static method to check if a chip is a mapping (SNP) chip
AffymetrixCdfFile.nbrOfGroupsPerUnit {aroma.affymetrix}Gets the number of groups in each unit
AffymetrixCdfFile.nbrOfSnps {aroma.affymetrix}Gets the number of SNPs
AffymetrixCdfFile.readUnits {aroma.affymetrix}Reads CDF data unit by unit
AffymetrixCdfFile.readUnitsByQuartets {aroma.affymetrix}Gets the cell quartets for each base position