CleanBAMtoBG            CleanBAMtoBG
CleanBEDtoBG            CleanBEDtoBG
ExtractTranscriptomeSequence
                        ExtractTranscriptomeSequence
GenomeMappingToChainFile
                        GenomeMappingToChainFile
assessGrouping          assessGrouping
bindingContextDistance
                        bindingContextDistance
bindingContextDistanceCapR
                        bindingContextDistanceCapR
getChainChrSize         getChainChrSize
get_outfiles            get_outfiles
liftOverToExomicBG      liftOverToExomicBG
nearBynding             Discern RNA structure proximal to protein
                        binding
processCapRout          processCapRout
runCapR                 runCapR
runStereogene           runStereogene
runStereogeneOnCapR     runStereogeneOnCapR
symmetryCapR            symmetryCapR
symmetryContext         symmetryContext
visualizeCapRStereogene
                        visualizeCapRStereogene
visualizeStereogene     visualizeStereogene
write_config            write_config
write_fasta             write_fasta
