API for Jfortin1/crisprBase
Base functions and classes for CRISPR gRNA design

Global functions
.buildEditingWeightsMatrix Source code
.buildGRFromPamSite Source code
.checkDNAAlphabet Source code
.checkRebaseMotif Source code
.checkRebaseMotifs Source code
.crisprNickaseToCrisprNuclease Source code
.expandMotifs Source code
.extractCutSitesFromRebaseMotifs Source code
.extractSequencesFromRebaseMotifs Source code
.getComboNames Source code
.getCutSites Source code
.getCutSites_downstream Source code
.getCutSites_unspecified Source code
.getCutSites_upstream Source code
.getCutSites_within Source code
.getMaxEditingWeight Source code
.getOriginBaseFromRownames Source code
.getReducedEditingMatrix Source code
.getTargetBaseFromRownames Source code
.isBaseEditor Source code
.isBaseEditorOrStop Source code
.isCrisprNuclease Source code
.isCrisprNucleaseOrStop Source code
.isCutDownstream Source code
.isCutNotSpecified Source code
.isCutUpstream Source code
.isCutWithin Source code
.isNuclease Source code
.isNucleaseOrStop Source code
.makeLongInteger Source code
.nickaseToNuclease Source code
.printMatrixNicely Source code
.printVectorNicely Source code
.resetGRCoordinates Source code
.subColors Source code
.validateGROrNull Source code
.validateInteger Source code
.validateNonNegativeInteger Source code
.validatePosGrOrNull Source code
.validateStrand Source code
.validateTargets Source code
AsCas12a Man page
BE4max Man page
BaseEditor Man page Source code
BaseEditor-class Man page
CasRx Man page
CrisprNickase Man page Source code
CrisprNickase-class Man page
CrisprNuclease Man page Source code
CrisprNuclease-class Man page
Nickase Man page Source code
Nickase-class Man page
Nuclease Man page Source code
Nuclease-class Man page
SaCas9 Man page
SpCas9 Man page
SpGCas9 Man page
annotateMismatches Man page Source code
baseEditorName Man page
baseEditorName,BaseEditor-method Man page
baseEditorName<- Man page
baseEditorName<-,BaseEditor-method Man page
cutSites Man page
cutSites,Nickase-method Man page
cutSites,Nuclease-method Man page
editingStrand Man page
editingStrand,BaseEditor-method Man page
editingStrand<- Man page
editingStrand<-,BaseEditor-method Man page
editingWeights Man page
editingWeights,BaseEditor-method Man page
editingWeights<- Man page
editingWeights<-,BaseEditor-method Man page
enAsCas12a Man page
extractPamFromTarget Man page Source code
extractProtospacerFromTarget Man page Source code
getAvailableCrisprNucleases Man page Source code
getPamRanges Man page Source code
getProtospacerRanges Man page Source code
getTargetRanges Man page Source code
hasSpacerGap Man page
hasSpacerGap,CrisprNickase-method Man page
hasSpacerGap,CrisprNuclease-method Man page
isCutting Man page
isCutting,Nickase-method Man page
isCutting,Nuclease-method Man page
isDnase Man page
isDnase,Nuclease-method Man page
isRnase Man page
isRnase,Nuclease-method Man page
metadata Man page
metadata<- Man page
motifLength Man page
motifLength,Nickase-method Man page
motifLength,Nuclease-method Man page
motifs Man page
motifs,Nickase-method Man page
motifs,Nuclease-method Man page
nickaseName Man page
nickaseName,Nickase-method Man page
nickaseName<- Man page
nickaseName<-,Nickase-method Man page
nickingStrand Man page
nickingStrand,Nickase-method Man page
nickingStrand<- Man page
nickingStrand<-,Nickase-method Man page
nucleaseName Man page
nucleaseName,Nuclease-method Man page
nucleaseName<- Man page
nucleaseName<-,Nuclease-method Man page
pamIndices Man page
pamIndices,CrisprNickase-method Man page
pamIndices,CrisprNuclease-method Man page
pamLength Man page
pamLength,CrisprNickase-method Man page
pamLength,CrisprNuclease-method Man page
pamSide Man page
pamSide,CrisprNickase-method Man page
pamSide,CrisprNuclease-method Man page
pamSide<- Man page
pamSide<-,CrisprNickase-method Man page
pamSide<-,CrisprNuclease-method Man page
pams Man page
pams,CrisprNickase-method Man page
pams,CrisprNuclease-method Man page
plotEditingWeights Man page Source code
prototypeSequence Man page
prototypeSequence,CrisprNickase-method Man page
prototypeSequence,CrisprNuclease-method Man page
reexports Man page
restrictionEnzymes Man page
show,BaseEditor-method Man page
show,CrisprNickase-method Man page
show,CrisprNuclease-method Man page
show,Nickase-method Man page
show,Nuclease-method Man page
spacerGap Man page
spacerGap,CrisprNickase-method Man page
spacerGap,CrisprNuclease-method Man page
spacerGap<- Man page
spacerGap<-,CrisprNickase-method Man page
spacerGap<-,CrisprNuclease-method Man page
spacerIndices Man page
spacerIndices,CrisprNickase-method Man page
spacerIndices,CrisprNuclease-method Man page
spacerLength Man page
spacerLength,CrisprNickase-method Man page
spacerLength,CrisprNuclease-method Man page
spacerLength<- Man page
spacerLength<-,CrisprNickase-method Man page
spacerLength<-,CrisprNuclease-method Man page
targetLength Man page
targetLength,CrisprNickase-method Man page
targetLength,CrisprNuclease-method Man page
targetType Man page
targetType,Nuclease-method Man page
targetType<- Man page
targetType<-,Nuclease-method Man page
weights Man page
weights,Nickase-method Man page
weights,Nuclease-method Man page
weights<- Man page
weights<-,Nickase-method Man page
weights<-,Nuclease-method Man page
Jfortin1/crisprBase documentation built on July 20, 2022, 2:44 a.m.