Man pages for betsig/branchpointer
Prediction of intronic splicing branchpoints
| exonsToIntrons | Convert exon annotation GRanges to intron locations |
| getBranchpointSequence | Get branchpoint sequence features Gets intronic sequence... |
| getCanonical3SS | Get locations of the first five AG 3' splice site motifs |
| getExonDists | Get the closest 3' and 5' exons |
| getPPT | Get the best polypyramidine tract |
| getQueryLoc | Find the closest 3' and 5' exons to a branchpointer query |
| gtfToExons | Convert GTF file to exon location file |
| makeBranchpointWindowForExons | Make branchpoint window regions |
| makeBranchpointWindowForSNP | Makes a branchpointer formatted GRanges object from refsnp... |
| plotBranchpointWindow | Plots branchpointer predictions |
| plotStructure | Plots transcript structures |
| predictBranchpoints | Predict branchpoint probability scores |
| predictionsToSummary | Convert SNP branchpoint predictions across the branchpoint... |
| readQueryFile | Read a query file |
