Man pages for h5vc
Managing alignment tallies using a hdf5 backend
| applyTallies | Preparing the results of tallyBAM for writing to an HDF5... |
| batchTallies | Tallying bam files in parallel using 'BatchJobs' on high... |
| binGenome | Function for binning a genome. |
| binnedAFs | Estimate allelic frequency distributions in bins along the... |
| callVariants | Variant calling |
| callVariantsFisher | Paired variant calling using fisher tests |
| callVariantsSingle | Single sample variant calling |
| coverage | Coverage analysis |
| geom_h5vc | geom_h5vc |
| getSampleData | Reading and writing sample data from / to a tally file |
| h5dapply | h5dapply |
| h5readBlock | h5readBlock |
| h5vc-package | Managing alignment tallies using a hdf5 backend |
| helpers | helper functions |
| mergeTallies | Merging the prepared results from multiple bam file tallies... |
| mergeTallyFiles | Merging multiple tally files into one |
| mismatchPlot | mismatchPlot |
| mutationSpectrum | Mutation spectrum analyses |
| plotMutationSpectrum | Plotting a mutation spectrum |
| prepareForHDF5 | Preparing the results of tallyBAM for writing to an HDF5... |
| prepareTallyFile | prepareTallyFile |
| tallyBAM | tallyBAM |
| tallyRanges | Tallying function with a 'GRanges' interface. |
| writeReference | Filling the Reference dataset in a tally file from a... |
| writeToTallyFile | Writing data to an HDF5 tally file |
