Man pages for Jfortin1/crisprBase
Base functions and classes for CRISPR gRNA design

annotateMismatchesAnnotate mismatches between spacer and protospacer sequences
AsCas12aAsCas12a CrisprNuclease object
BaseEditor-classAn S4 class to represent a base editor
BE4maxBE4max BaseEditor object
CasRxCasRx CrisprNuclease object
CrisprNickase-classAn S4 class to represent a CRISPR nickase.
CrisprNuclease-classAn S4 class to represent a CRISPR nuclease.
enAsCas12aenAsCas12a CrisprNuclease object
extractPamFromTargetExtract PAM sequences from target sequences
extractProtospacerFromTargetExtract protospacer sequences from target sequences
getAvailableCrisprNucleasesReturn list of available CrisprNuclease objects in crisprBase
getCutSiteFromPamSiteReturn cut site coordinates from PAM site coordinates
getCutSiteRangesConstruct a cut site GRanges from a list of PAM sites
getPamRangesConstruct a PAM GRanges from a list of PAM sites
getProtospacerRangesConstruct a protospacer GRanges from a list of PAM sites
getTargetRangesConstruct a target GRanges from a list of PAM sites
Nickase-classAn S4 class to represent a nickase
Nuclease-classAn S4 class to represent a nuclease.
plotEditingWeightsQuick plot to visualize editing weights
reexportsObjects exported from other packages
restrictionEnzymesList of Nuclease objects representing common restriction...
SaCas9SaCas9 CrisprNuclease object
SpCas9SpCas9 CrisprNuclease object
SpGCas9SpGCas9 CrisprNuclease object
Jfortin1/crisprBase documentation built on Aug. 13, 2022, 4:34 p.m.