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)
filterOffTarget         filter off targets and generate reports.
filtergRNAs             Filter gRNAs
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 of 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
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
