CHANGES

## 0.8.0 (2019-09-04)
- Added CreateNetwork to tools
- Smaller bugfixes

## 0.7.0 (2019-08-13)
- Updated the way p-values are calculated in BINDetect. Included 100-fold subsampling of background to estimate confidence interval.

## 0.6.4 (2019-08-07)
- Bug fix for error with regions very close to chromosome borders for ATACorrect and ScoreBigwig. 

## 0.6.3 (2019-07-16)
- Increased size of texts in BINDetect volcano plot and moved label into plot

## 0.6.2 (2019-06-19)
- Added --skip-excel option to skip excel overview per factor in BINDetect (can slow the run considerably for large output)
- Internal changes to BINDetect for better debug overview
- Fixed normalization for plotAggregate

## 0.6.1 (2019-06-05)
- Fixed motif cluster names to prefix C_
- Added --filter function to format_motifs to filter output motifs using names/ids

## 0.6.0 (2019-05-29)
- Added option to flip axes in PlotAggregate via "--signal-on-x"
- Changed all command-line arguments containing "_" to "-" (e.g. --regions_in to --regions-in) (but retaining both options internally)

## 0.5.3 (2019-05-28)
- Improved error messaging from file writers in bindetect

## 0.5.2 (2019-05-16)
- Bugfix for reading meme format files in MotifList().from_file()

## 0.5.1 (2019-05-15)
- Internal changes to OneMotif and MotifList classes
- Bindetect now takes directories/file(s) as input for --motifs

## 0.5.0 (2019-05-02)
- Added sum/mean/none scoring to ScoreBigwig as well as the option to get --absolute of input signal

## 0.4.1 (2019-04-29)
- Fixed weird "can't pickle SwigPyObject objects"-error in bindetect

## 0.4.0 (2019-04-29)
- Added --add_region_columns to TFBScan
- Renamed FootprintScores to ScoreBigwig
- Added normalization of input score distributions in BINDetect
- Added general warning for --cores > max number of processors when running multiprocessing
- Updated PlotChanges to also plot mean_score and percent_bound as well as overview per motif cluster
- Added MOODS-python as dependency through pip

## 0.3.1 (2019-04-10)
- Split motif ids between name/motif_id/output_prefix