Functions for running the entire workflow
addAlignments()
Add multiple sequence alignment to guideSet object
addCombinations()
Add guideRNA combinations to guideSet object.
addGuides()
Add guideRNAs to guideSet object
addTargets()
Add targets to a guideSet object
createGuideSet()
Create new guideSet object
clustGuides()
Cluster guideRNAs
selGuides()
Blacklist guideRNAs
Functions for reading, writing and accessing guideSet objects
blacklisted()
Returns blacklisted regions from guideSet
combinations()
export()
Exports results from guideSet
mappings()
Returns genomic mappings from guideSet
repnames()
Returns transposable element families from guideSet
Functions for generating QC plots
plotCombinations()
Generates combinations QC plots
plotGuides()
Generates guides QC plots
plotTargets()
Generates targets QC plots
Datasets provided with the Repguide package
essential_genes
Essential human gene promoter coordinates
Repguide S4 objects
guideSet-class
An S4 class to store genomic annotations and results of Repguide functions.