getQueryLoc | Find the closest 3' and 5' exons to a branchpointer query |
gtfToExons | Convert GTF file to exon location file |
makeRegions | Make branchpoint window regions |
plotBranchpointWindow | Plots branchpointer predictions |
plotStructure | Plots transcript structures |
predictBranchpoints | Predict branchpoint probability scores |
predictionsToStats | Convert SNP branchpoint predictions across the branchpoint window to an intronic summary |
readQueryFile | Read a query file |
snpToQuery | Gets a branchpointer formatted query from refsnp ids |