NEWS
driveR 0.4.1.9001
Major Changes
- added support for gene-level SCNA data frames to be used as input for
create_features_df() and added an example gene-level SCNA data frame example_gene_scna_table
driveR 0.4.1 (2023-08-19)
Minor changes and bug fixes
- fixed a CRAN error due to a package documentation issue (#7)
driveR 0.4.0 (2022-08-15)
Major Changes
driveR 0.3.0 (2022-01-18)
Major Changes
- Updated the cancer-type-specific thresholds
Minor changes and bug fixes
- Updated citation to the method's article where necessary
driveR 0.2.1 (2020-11-25)
Major Changes
- Updated the MTL model after fixing the issue below
- Fixed issue in
MCR_table. The coordinates were converted to hg19 (from hg18)
Minor changes and bug fixes
- Made use of
caret::predict.train explicit
- Removed 'Homo.sapiens' from Imports field (not used)
driveR 0.2.0 (2020-11-19)
Major Changes
- Fixed an issue in
create_SCNA_score_df() where the SCNA score was not calculated because the column name for "MCR_overlap_percent" was incorrectly assigned as "transcript_overlap_percent"
- Updated the MTL classification model
TCGA_MTL_fit and specific_thresholds after fixing the issue above
Minor changes and bug fixes
- Updated citation information, correcting author name
- Minor changes in utility functions
- Added the
na.string argument to create_noncoding_impact_score_df(), predict_coding_impact() and create_features_df() as the string that was used to indicate when a score is not available during annotation with ANNOVAR (default = ".")
- Generalized
determine_hotspot_genes() to able to use occurrence annotations from different versions of COSMIC
- Updated all data
driveR 0.1.1 (2020-11-18)
Initial release