- MSI/Sample/Tissue columns in the genomic features are not required anymore.
- FDR lines in volcano plots are now using interpolation and
therefore more precisily placed. Fixes 57
- volcano plot improvments. Fixes 79, 80, 81
- Fixes issue 72 to get the drug_decoder information from the ANOVA class.
- Fixes issue 76 to drop IC50 cosmic Id not found in the genomic feature
matrix
- Readers (e.g. IC50) can now read CSV files with commented lines ( character)
issue 78
- Readers can now ignored columns that are not named (usually first column of
index exported by excel document)
- IC reader figure out automatically if the prefix "Drug" has been used. It so,
it drops other irrelevant columns. Useful if genomic features and IC50 are
mixed together.
- IC50 and GenomicFeatures, DrugDecode now accepts both TSV and CSV format
(gziped or not)
- add more datasets for testing purposes
- double checked results on BLCA tissue v17 and v18
- Finalise a first version of the standalone application
- ReadTheDocs documentation is now on line gdsctools.readthedocs.org
- GDSCTools has now all features of the original R version
- With in addition:
- a standalone application
- test suite
- documentation
- benchmarking for the analysis in about 20 minutes 265 drugs and 680 features
across 980 cell lines. HTML report takes as much time.