v1.4.0

• Added group autoscale for bigwig and coverage tracks.
• Added support for gff3 format for gene annotations.
• Improved the GUI for the copynumber track.
• Fixed various bugs reported by users:
  • now correctly handles vcf files with indels for sv tracks.
  • now correctly handles tsv input for sv tracks.
  • now correctly plots copynumber tracks in circular layout, when only CNVs are provided.
  • fixed a bug with the "scale per region" option of bigwig tracks.
  • now correctly handles HiC data that has not been normalized, for hic tracks.

v1.3.0

• chr_axis track: add lw_scale parameter.
• alignments track: add more parameters for displaying split reads.
• basemod_freq track: add support for all-tab bedmethyl file format.
• Windows: fix int overflow when showing all chromosomes.
• Added several warnings.

v1.2

• Better error messages (e.g. if an input file is missing or has the wrong format).
• New warning messages.
• GUI: now displays a panel once the figure is successfully generated, with buttons to open the generated figure or its directory.
• Add ticks_angle option for chr_axis track and show_gene_names option for genes track.
• Various bug fixes.

v1.1.0

General

• Added built-in support for mm10 in addition to hg19 and hg38 (but any other reference genome can be used, if you manually provide the files).
  -Removed requirement for the chr_arms file for custom reference genomes.

Regions

• Now allows region start and end to be given as strings, and also accepts commas.

Tracks

basemod_freq

• Added support for bedgraph and 3-column tsv file formats, in addition to bam and bedmethyls.
• Added parameters: style, smooth, gap_frac.

bigwig and coverage tracks

• Added "upside_down" parameter.

genes

• Improved spacing between genes.

Misc

• Various bug fixes

v1.0

GUI

• Improve file dialogs
• Add option to select the region around a gene
• new icon

Bug fixes

• Fixed a bug with highlights opacity

v0.3

GUI

• improve file dialogs
• improve color selector

Tracks

hic

• Add colorbar

basemod_freq

• Add support for bedmethyl

bed

• Fixed bug

sv

• Improved support for tsv input

0.2

• New GUI
• Link splitreads
• Various other improvements

0.1

fix ticklabels