Container for PhIP-Seq Experiments

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Documentation for package ‘PhIPData’ version 1.0.0

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.PhIPData The PhIPData class
aliases Using aliases to subset virus data
assay<--method Accessing and Modifying Information in PhIPData objects
assays<--method Accessing and Modifying Information in PhIPData objects
counts-method Accessing and Modifying Information in PhIPData objects
counts<--method Accessing and Modifying Information in PhIPData objects
defineBeads Defining how beads-only samples are encoded.
deleteAlias Using aliases to subset virus data
getAlias Using aliases to subset virus data
getAliasPath Using aliases to subset virus data
getBeadsName Defining how beads-only samples are encoded.
getLibrary Peptide libraries
getLibraryPath Peptide libraries
librarySize Calculate total read counts for each sample.
logfc Accessing and Modifying Information in PhIPData objects
logfc-method Accessing and Modifying Information in PhIPData objects
logfc<- Accessing and Modifying Information in PhIPData objects
logfc<--method Accessing and Modifying Information in PhIPData objects
makeLibrary Peptide libraries
peptideInfo Accessing and Modifying Information in PhIPData objects
peptideInfo-method Accessing and Modifying Information in PhIPData objects
peptideInfo<- Accessing and Modifying Information in PhIPData objects
peptideInfo<--method Accessing and Modifying Information in PhIPData objects
peptideLibraries Peptide libraries
PhIPData The PhIPData class
PhIPData-class The PhIPData class
PhIPData-methods Accessing and Modifying Information in PhIPData objects
prob Accessing and Modifying Information in PhIPData objects
prob-method Accessing and Modifying Information in PhIPData objects
prob<- Accessing and Modifying Information in PhIPData objects
prob<--method Accessing and Modifying Information in PhIPData objects
sampleInfo Accessing and Modifying Information in PhIPData objects
sampleInfo-method Accessing and Modifying Information in PhIPData objects
sampleInfo<- Accessing and Modifying Information in PhIPData objects
sampleInfo<--method Accessing and Modifying Information in PhIPData objects
setAlias Using aliases to subset virus data
setAliasPath Using aliases to subset virus data
setBeadsName Defining how beads-only samples are encoded.
setLibraryPath Peptide libraries
subsetBeads Subset beads-only samples