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Quick on the Draw

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@justinaruda justinaruda released this 11 Dec 06:44
· 55 commits to main since this release

What's new in 0.22.1

Draw

  • The draw module creates vectorized, publication-quality figures, directly from the output of SEISMIC-RNA's fold module.
  • Initially piloted in 0.22.0, drawing can now be run automatically as part of wf by including the --draw flag.
  • The draw command will automatically color bases according to the reactivities used by SEISMIC-RNA to constrain the structure prediction, although this behavior can be disabled with the --no-color flag.
  • When multiple structures are predicted, only the one with the best AUROC will be drawn by default, although any structure(s) can be specified with the --struct-num flag.
  • Many thanks to Fabrice Jossinet (@fjossinet) for developing RNArtistCore, the heart the draw module.
  • To install RNArtistCore, first download the latest release and save the .jar file in a safe place. Second, set the environmental variable RNARTISTCORE to the full path to the .jar file. It is recommended you do this by adding the line export RNARTISTCORE="/full/path/to/your/rnartistcore-X.X.X-SNAPSHOT-jar-with-dependencies.jar" to your .bashrc or .zshrc file.
  • Installation instructions for RNArtistCore can also be found in a descriptive error message triggered by running the draw command when it is not installed.

Bug Fixes

  • Fixed incorrect parsing of structure profiles generated from mask tables when using the draw module.
  • Implemented safeguards against missing color and table files when drawing structures.

Full Changelog: v0.22.0...v0.22.1