• Add --region flag to select subsequences #48
• Update documentation images, add sample annotation track.
• Bugfix #31 zero division error for low resolution plots

Bugfix:

• Fixed bug where bedpe file for comparative plots wouldn't link correctly.

Features:

• Adds cooler support for static plots
• Adds a new annotation track for TRI plots (FULL and COMPARATIVE support coming soon!)

New features:

• Parses fasta header when subsequence created using samtools faidx. Moves start and end coordinates to dotplot axes in static mode

Changes:

• .bed file output by ModDotPlot changed to .bedpe, to avoid ambiguity with annotation files
• Changes --bed to --input in static mode.
• --bed now accepts annotation files

Bugfixes:

• Fixed type comparison bug for when axis need different breakpoint amounts
• Fixed bug preventing comparative histograms from getting output.

Bugfixes:

• Fixed bug where file name did not match sequence in comparative mode.

Features:

• Added comparative mode sorting feature by size or by order of entry (default).

New features:

• Rasterizes plots by default. Smooths out triangle plots.
• Accepts bgzip compressed fasta files as input

Notes:

• Bug noted in grid orientation: will fix ASAP
• Using -a or -t breaks grid functionality. Will fix ASAP.
• Need to update README with new features

Feature:

• Add grid and grid-only option

Bugfix:

• Fix bug where multifasta files would lose indexing

Bugfix:

• #36 Replace PIL with pillow