Changelog

CRISPIN 1.0.1¶

• CRISPIN is now archived in Zenodo as v1.0.0. You can cite it with https://doi.org/10.5281/zenodo.13844209. (@kelly-sovacool)
• Fix bug in spooker handler. (#49, @kelly-sovacool)

CRISPIN 1.0.0¶

• The pipeline name has been changed from CRUISE 🛳️ to CRISPIN 🍪. (#43, @kelly-sovacool)
• Run spooker on workflow completion.
• Print the recommended citation in bibtex format with crispin --citation. (#32, @kelly-sovacool)
• Fix citation information (#38, @kelly-sovacool)
• Improve the documentation website with a dropdown menu to select which version to view. The latest release is shown by default. (#45, @kelly-sovacool)

CRUISE 0.1.1¶

Bug fixes¶

• All scripts in the bin directory are now made executable for all users on biowulf (#25).
• Data directories are copied recursively during python package installation (#26).

CRUISE 0.1.0¶

This is the first release of CRUISE 🎉

New features¶

• Trim adapters with cutadapt.
• Run mageck count. (#9)
• mageck count only runs if a count table isn't given.
• Optional: run mageck test and mle. (#9)
• mageck mle only runs if a design matrix is given.
• Optional: run drugZ. (#10)
• Optional: run BAGEL2. (#11)
• fc (fold change)
• bf (bayes factor)
• pr (precision recall)
• CLI (#16)
• cruise init to initialize a project directory.
• cruise run
  • --mode slurm to submit a slurm job to biowulf or frce.
  • --main path/to/main.nf to select a different local install of cruise, or specify the repo (CCBR/CRUISE) to get it from GitHub.