BUG REPORTS
- Fixed the SigProfiler installation error due to Python version in conda environment.
- Fixed classification bug due to repeated function name
call_component.
- Fixed the bug when
read_vcf() with ## commented VCF files.
ENHANCEMENTS
- Added support for latest COSMIC v3.2 as reference signatures. You can obtain them by
for (i in c("latest_SBS_GRCh37", "latest_DBS_GRCh37", "latest_ID_GRCh37",
"latest_SBS_GRCh38", "latest_DBS_GRCh38",
"latest_SBS_mm9", "latest_DBS_mm9",
"latest_SBS_mm10", "latest_DBS_mm10",
"latest_SBS_rn6", "latest_DBS_rn6")) {
message(i)
get_sig_db(i)
}
- Updated
keep_only_pass to FALSE at default.
- Added RSS and unexplained variance calculation in
get_sig_rec_similarity().
- Added data check and filter in
output_tally() and show_catalogue().
- Enhanced
show_group_enrichment() (#353) & added a new option to cluster rows.
- Removed unnecessary CN classifications code in recent development.
NEW FUNCTIONS
DEPRECATED
- Dropped copy number "M"" method to avoid misguiding user to use/read wrong signature profile and keep code simple.
