Changelog

Changelog#

All notable changes to this project will be documented in this file.

The format is based on Keep a Changelog, and this project adheres to Semantic Versioning.

[Unreleased]#

Added#

  • Requests-cache dependency for robust dataset downloads

  • Documentation improvements and tutorial updates

Fixed#

  • Parameter name in enrichment analysis function

  • Typo in requests-cache dependency

  • MS CSF dataset download reliability

[0.1.2] – 2025-12-22#

Added#

  • Lupus tutorial with data pre-processing

  • Support for Cytokine-induced Immune Programs (CIP) signatures as input

  • Support for custom gene-program signatures

  • CIP gene signature data

  • Well-bias filter in load_human_cytokine_dict()

  • Manuscript plots and README abstract

Fixed#

  • Indexing bug in _get_senders()

  • Docstrings for _get_genesets()

[0.1.1] – 2025-12-17#

Fixed#

  • Bug in get_senders() cytokine communication function

  • Updated tutorials

[0.1.0] – 2025-12-16#

Added#

  • Cytokine communication analysis (get_one_senders_and_receivers, get_all_senders_and_receivers)

  • Circos plot for cell-cell communication (plot_communication)

  • Data loading functions for MS CSF, Lupus, and cytokine info datasets

  • Citation for the cytokine dictionary article

Changed#

  • Restructured enrichment test and dataset modules

[0.0.1] – 2025-12-07#

Added#

  • Initial release

  • Core enrichment analysis (run_one_enrichment_test, run_all_enrichment_test)

  • Robustness testing (check_robustness, get_robust_significant_results)

  • Heatmap plotting (plot_significant_results)

  • Human Cytokine Dictionary data loading

  • Multiple Sclerosis tutorial notebooks