MutSeqR 0.99.0 (2025-06-19)
Initial public version.
Major changes
- Added
filter_mut()
to workflow: germline identification viavaf_cutoff
, region filtering, and depth correction now occur here instead of the import functions. -
calculate_mut_freq()
is renamed tocalculate_mf()
. -
calculate_mf()
no longer requires depth; users may:- calculate depth from mutation data,
- supply a separate depth table, or
- omit depth entirely (only mutation counts returned).
-
correct_depth
option moved tocalculate_mf()
. -
plot_spectra()
,plot_trinucleotide()
, andspectra_comparison()
now usemf_data
instead of raw mutations. - Output options added: VCF, FASTA, SigProfiler-compatible format, Excel workbook.
- Example dataset (~44MB) added.
New features
-
render_report()
added for standardized summary reporting.
Other
- Removed
custom_regions
parameter; replaced by generalizedregions
argument. - Public release 🎉
- See the vignette for details.