CRISPRseek-package | Design of target-specific guide RNAs (gRNAs) in CRISPR-Cas9, genome-editing systems |
annotateOffTargets | annotate off targets |
buildFeatureVectorForScoring | Build feature vectors |
calculategRNAEfficiency | Calculate gRNA Efficiency |
compare2Sequences | Compare 2 input sequences/sequence sets for possible guide RNAs (gRNAs) |
CRISPRseek | Design of target-specific guide RNAs (gRNAs) in CRISPR-Cas9, genome-editing systems |
deepCpf1 | DeepCpf1 Algorithm for predicting CRISPR-Cpf1 gRNA Efficacy |
filtergRNAs | Filter gRNAs |
filterOffTarget | filter off targets and generate reports. |
findgRNAs | Find potential gRNAs |
getOfftargetScore | Calculate score for each off target |
isPatternUnique | Output whether the input patterns occurs only once in the sequence |
offTargetAnalysis | Design target-specific guide RNAs for CRISPR-Cas9 system in one function |
offTargetAnalysisWithoutBSgenome | Design of target-specific guide RNAs for CRISPR-Cas9 system in one function without BSgenome |
predictRelativeFreqIndels | Predict insertions and deletions induced by CRISPR/Cas9 editing |
searchHits | Search for off targets in a sequence as DNAString |
searchHits2 | Search for off targets |
translatePattern | translate pattern from IUPAC Extended Genetic Alphabet to regular expression |
uniqueREs | Output restriction enzymes that recognize only the gRNA cleavage sites |
writeHits | Write the hits of sequence search from a sequence to a file |
writeHits2 | Write the hits of sequence search to a file |