IGV 2.15.4 - Dec 2022#

New features:

• In hyperlinks that load data into IGV (see documentation here), the merge paramater now can be assigned the value ask, which will pop up a dialog and ask the user whether or not to unload the current session before loading the new data tracks. Git Issue #1261

• Coordinates in .mut mutation files are now by default assumed to be "0 based half-open" (UCSC Genome Browser style). There is also a new parameter in View > Preferences > Mutations that allows you to change the default behavior to "1 based, fully-closed", and a .mut file can include a new #coords directive to explicitly set the value to either 0 or 1.

Bug fixes:

• In batch scripts, quoting the string for the genome path was not working. Git Issue #1258

IGV 2.15.2 - Nov 2022#

Bug fixes:

• IGV did not start up when using a proxy. Git Issue #1251
• IGV asked for Google login even for public Google datasets.
• Sashimi plots truncated graphs if multiple samples were loaded.

IGV 2.15.1 - Oct 2022#

New features:

• Allow setting access tokens for specific hosts from batch scripts. Git Issue 1199
• Option to explicitly set maximum splice coverage from Splice Junction Track. Git Issue 1015

Updates and bug fixes

• Change "mut" file parsing to assume 1-based coordinates by default. Git Issue 1226
• Use ID attribute for feature info links if ID is explicitly set. Fixes regression introduced post release 2.12.3. Git issue 1232
• Bug fix: Images not saved from Sashimi plots. Git Issue 1214