v1.1.1

GW v1.1.1

New features added:

• Save pdf and svg using the save command #59
• Added ability to turn off alignments; toggle using the alignments command #60
• Added data labels; toggle using the labels command #60
• Better drawing of GFF3 (gene boundary also now shown)
• Added slow zoom (CTRL key + zoom)
• Other data now drawn when no reads present

Bug fixes:

• OOB error when mouse-over reference
• Segfault when no reads visible
• Other minor bug fixes

v1.1.0

GW v1.1.0

New features added:

• Ability to sort reads by position using sort command or S as a hotkey #44
• Added --command or -c option to CLI, allowing user to run any command prior to drawing
• Better drawing of mod bases when zoomed out
• Build script for skia

Bug fixes:

• Segfault caused by backspace key
• Missing font issue on Ubuntu 24
• Mod base segfault
• Other minor bug fixes related to screen updating after issuing commands

v1.0.3

Bug fixes + debug options

• Improved openGL context creation and debugging using GW_DEBUG=1 environment variable
• Addition of glad to manage OpenGL loading, and options to set context API for openGL
• Regression bug causing black screen when saving image to png, affecting small regions (since v0.10.0)
• Regression bug causing mods to be parsed when using single threaded low-memory mode (since v0.10.1)

v1.0.2

Minor release

• Better GTF/GFF3 drawing #43

Fixes

• Methylation drawn for both strands
• GTF/GFF3 start location
• Removed annoying horizontal cursor introduced in 1.0.1
• Color command works for all track types
• Mods_qual_threshold added to session file

v1.0.1

Minor release:

• Changed GFF3 / GTF name parsing #43
• Possible fix for segfault using intel macOS #42

GW v1.0.0

New features

• Sort reads by strand or haplolag using sort strand or sort hap commands
• Ideograms as default
• Scale bars as default
• PAF file support
• header command to show bam file header contents
• Track strand now shown with arrow
• Redirect selected reads to a bam file using sam > out.bam or sam >> a.bam etc
• Shortcuts for ylim
• Better keyboard integration
• Load path or session from splash screen
• Backwards compatible .gw.ini
• Cleaner drawing style

Fixes

• Menu interactions and popups work consistently
• More consistent screen updates after applying commands
• Bug in htslib code for mod parsing
• Other minor bug fixes

v0.10.1

v0.10.1

Improvements:

• Ability to add comments to image tiles when labelling
• load command now supports all file types
• save command supports label files
• Better tab-completion for load and save
• Fixed several bugs relating to image clipping
• Several bug fixed for drawing following applying commands

v0.10.0

GW v0.10.0

Improvements

• Up to 20% faster long-read drawing
• Base modifications supported (5mc, 5hmc)
• Session files - pick up where you left off
• Save reads from a region straight to a bam file
• Fully customisable colours
• Ideograms as bed files + customisable ideograms
• Improved themes
• Option to compile gw as c++ library or wasm target
• Add regions of interest with roi command
• Lots of bug fixes

v0.9.3

v0.9.3

• Big performance improvements for large scale regions
• Automatic low memory mode, memory stays low even for chromosome scale views
• Filter/count on read pattern e.g. 'filter pattern == del or pattern == dup'
• Filter/count using named sam flag properties e.g. 'filter ~proper-pair'
• Added options for tag command e.g. 'tag NM' prints NM tag from target read
• Option to output SVG image
• Coloured arcs can be drawn for SVs when loaded as a track
• Fixed longstanding issues involving Mac - Linux X-forwarding
• Several bug fixes

v0.9.1

v0.9.1

New features

• User interface for selecting commands and editing settings
• SNP frequency drawn over coverage track
• Multiple VCF files supported for labelling
• Support for GFF3, GTF, BIGWIG, BIGBED
• Tracks can be expanded and resized with mouse
• More customisation of look; slate theme, turn on/off mismatches, edges, indels
• Faster runtime ~15% on linux, 2x faster image generation
• More model organisms supported out of the box
• Use command box to search for features in tracks, or take notes
• Integration with online genome browsers using online command
• Installers for MacOS (dmg), debian (deb) and Windows (vb script)
• Open a bam file by double-clicking or using Open With (reference genome is automatically)
• Numerous bug fixes

Breaking changes

• GW_LABEL files now contain one extra column with the filename of the original variant file.
• .gw.ini file will need to be replaced.