GRanges2GRangesList     Convert a GRanges object to a GRangesList
                        object
GRangesList2GRanges     Convert a GRangesList object to a GRanges
                        object
calculateShift          Calculate positional shifting over
                        transcriptome
distanceTx              Evaluation function
extractRegions          Extract regions
getFormatCorrect        getFormatCorrect
getPermSpaceByFeatures
                        Get permutation space for features
getPermSpaceByTxID      Get permutation space by specifying transcript
                        ids
getPermSpaceByType      Get permutation space by specifying type
getPvalZscore           getPvalZscore
getStopCodon            getStopCodon
getTransInfo            Get transcript information
overlapCountsTx         Evaluation function
overlapCountsTxIA       Evaluation function
overlapWidthTx          Evaluation function
permTestTx              Perform permutation test
permTestTxIA            Perform permutation test
permTestTxIA_customPick
                        Perform permutation test
permTestTx_customAll    Perform permutation test
permTestTx_customPick   Perform permutation test
plotPermResults         Plot permutation test results
plotShiftedZScoreTx     Plot shifted z scores
randomizeFeaturesTx     Randomize features into transcriptome
randomizeFeaturesTxIA   Randomize features into transcriptome
randomizeTransByOrder   Randomize features into transcriptome
randomizeTx             Get randmized regions over transcriptome
shiftTx                 Shift over transcripts
shiftedZScoreTx         Calculate shifted z scores
vector2GRangesList      vector2GRangesList
