A new 2019.4 version of BioUML was released and can be downloaded from https://new.bio-store.org.

New features and improvements:

General:

Headless version of BioUML refined and improved. More information and example scripts can be found here.

All Curated Biomodels tested to be imported and simulated

Automatically select imported data element in repository tree

Formats:

SBGN Process Description Level 1 version 2.0 supported: shapes of simple chemical and variable changed, equivalence operator implemented (not affecting simulation for now)

Better Reactome support (full support of new ID format, various fixes)

Option to use score satisfying UCSC сonventions during export in BED, GTF, GFF

Tables:

Table importer: fixed quotes processing, better processing of incomplete lines (with empty trailing values)

Info about matching path is shown in the results of the table converting (with versions of used databases).

Web version:

More precise edge selection in diagrams

Selected edges are highlighted with pink color

Move nodes on diagram using Ctrl+Arrow keys for 1px and Shift + Arrow keys for 5px shift

Copy and clone diagram element actions are separated

Initial integration with Jupyter

Track finder (user can set conditions and search for tracks in database (Ensembl, GTRD), the results can be added to the genome browser view from the tab)