tag:github.com,2008:https://github.com/marbl/ModDotPlot/releases 2026-02-10T15:04:18Z tag:github.com,2008:Repository/563040730/v0.9.9 2026-02-10T15:09:41Z <p>Feature request:</p> <ul> <li>Add <code>--forward</code> flag for strand specificity</li> </ul> alexsweeten tag:github.com,2008:Repository/563040730/v0.9.8 2025-08-29T15:38:49Z <ul> <li>Add <code>--region</code> flag to select subsequences <a class="issue-link js-issue-link" data-error-text="Failed to load title" data-id="3026710786" data-permission-text="Title is private" data-url="https://github.com/marbl/ModDotPlot/issues/48" data-hovercard-type="issue" data-hovercard-url="/marbl/ModDotPlot/issues/48/hovercard" href="https://github.com/marbl/ModDotPlot/issues/48">#48</a></li> <li>Update documentation images, add sample annotation track.</li> <li>Bugfix <a class="issue-link js-issue-link" data-error-text="Failed to load title" data-id="2429388836" data-permission-text="Title is private" data-url="https://github.com/marbl/ModDotPlot/issues/31" data-hovercard-type="issue" data-hovercard-url="/marbl/ModDotPlot/issues/31/hovercard" href="https://github.com/marbl/ModDotPlot/issues/31">#31</a> zero division error for low resolution plots</li> </ul> alexsweeten tag:github.com,2008:Repository/563040730/v0.9.7 2025-08-20T18:06:01Z <p>Bugfix:</p> <ul> <li>Fixed bug where bedpe file for comparative plots wouldn't link correctly.</li> </ul> alexsweeten tag:github.com,2008:Repository/563040730/v0.9.6 2025-08-20T06:17:41Z <p>Features:</p> <ul> <li>Adds cooler support for static plots</li> <li>Adds a new annotation track for TRI plots (FULL and COMPARATIVE support coming soon!)</li> </ul> alexsweeten tag:github.com,2008:Repository/563040730/v0.9.5 2025-08-06T14:20:19Z <p>Revert to tag-only publishing for PyPI trusted publisher compatibility</p> nritschel tag:github.com,2008:Repository/563040730/v0.9.4 2025-04-17T20:34:05Z <p>New features:</p> <ul> <li>Parses fasta header when subsequence created using <code>samtools faidx</code>. Moves start and end coordinates to dotplot axes in static mode</li> </ul> <p>Changes:</p> <ul> <li><code>.bed</code> file output by ModDotPlot changed to <code>.bedpe</code>, to avoid ambiguity with annotation files</li> <li>Changes <code>--bed</code> to <code>--input</code> in static mode.</li> <li><code>--bed</code> now accepts annotation files</li> </ul> alexsweeten tag:github.com,2008:Repository/563040730/v0.9.3 2025-03-20T16:19:59Z <p>Bugfixes:</p> <ul> <li>Fixed type comparison bug for when axis need different breakpoint amounts</li> <li>Fixed bug preventing comparative histograms from getting output.</li> </ul> alexsweeten tag:github.com,2008:Repository/563040730/v0.9.2 2025-03-16T01:07:57Z <p>Bugfixes:</p> <ul> <li>Fixed bug where file name did not match sequence in comparative mode.</li> </ul> <p>Features:</p> <ul> <li>Added comparative mode sorting feature by size or by order of entry (default).</li> </ul> alexsweeten tag:github.com,2008:Repository/563040730/v0.9.1 2025-03-06T04:01:37Z <p>New features:</p> <ul> <li>Rasterizes plots by default. Smooths out triangle plots.</li> <li>Accepts bgzip compressed fasta files as input</li> </ul> <p>Notes:</p> <ul> <li>Bug noted in grid orientation: will fix ASAP</li> <li>Using -a or -t breaks grid functionality. Will fix ASAP.</li> <li>Need to update README with new features</li> </ul> alexsweeten tag:github.com,2008:Repository/563040730/v0.9.0 2024-10-06T22:05:13Z <p>Feature:</p> <ul> <li>Add grid and grid-only option</li> </ul> alexsweeten