- Added '--cmap' option in PlotHeatmap (130) - Added 'drop-chrom' in ATACorrect to gain more control over which chromosomes should be excluded (142) - Added a True/False "<cond1>_<cond2>_highlighted" column in bindetect_results.txt/.xlsx files. These columns mark the highlighted TFs for each volcano plot. - Added check for empty '--TFBS' files in CreateNetwork
0.13.3
- Fix of bug in utilities:match_lists leading to false list-to-list assignment in PlotChanges (110) - Fixed bug in creating gimmemotifs object - Integrated checks related to gimmemotifs, pandas and python versions in ClusterMotifs - Added check for fonts and 'gs' in PlotTracks - Fixed bug for --track-off in TOBIAS ATACorrect
0.13.2
- Fix for bug introduced in 0.13.1 - faulty reading of motifs from .meme files
0.13.1
- Fix for 103 regarding BINDetect bound/unbound threshold - Fix for 107 for MEME motifs with nsites=1 leading to bad_alloc
0.13.0
- Added option '--norm-off' to BINDetect. Can be used in cases where the conditions are already normalized, or in case of issues in normalization. - Fixed bug in BINDetect leading to errors when motif prefixes are the same, but in a different case (e.g. Jun/JUN). Fixed by making unique regardless of case. - More checks in ATACorrect and BINDetect.
0.12.12
- Fix for reading .meme files with float 'nsites' and consecutive motifs in file - Better error message for missing 'gimmemotifs' import within ClusterMotifs - Performance improvement of remove_duplicates and resolve_overlaps within regions utils - Fix of bugs in ATACorrect (94) related to setting bias threshold