Container for PhIP-Seq Experiments

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Documentation for package ‘PhIPData’ version 1.17.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

.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
getBeadsName	Defining how beads-only samples are encoded.
getLibrary	Peptide libraries
librarySize	Calculate total read counts for each sample.
listLibrary	Peptide libraries
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
propReads	Proportion of sample reads
removeLibrary	Peptide libraries
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
setBeadsName	Defining how beads-only samples are encoded.
subsetBeads	Subset beads-only samples