Release notes

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]. Full commit history is available in the [commit logs].

0.2.3 (17.02.2025)

• Added numpy<2 dependency as version upgrade of NumPy to major version 2 breaks required scanpy version.
  [@sebastianbirk]

0.2.2 (09.01.2025)

• Synced repository with Zenodo to mint DOI for publication.
  [@sebastianbirk]

0.2.1 (15.10.2024)

• Added a user guide to the package documentation.
  [@sebastianbirk]

0.2.0 (22.08.2024)

• Fixed a bug in the configuration of random seeds.
• Fixed a bug in the definition of MEBOCOST prior gene programs.
• Raised the default quality filter threshold for the retrieval of OmniPath gene programs.
• Modified the GP filtering logic to combine GPs with the same source genes and drop GPs that do not have source genes if they have a specified overlap in target genes with other GPs.
• Changed the default hyperparameters for model training based on ablation experiments.
  [@sebastianbirk]

0.1.2 (13.02.2024)

• The version was incremented due to package upload requirements.
  [@sebastianbirk]

0.1.1 (13.02.2024)

• The version was incremented due to package upload requirements.
  [@sebastianbirk]

0.1.0 (13.02.2024)

• First NicheCompass version.
  [@sebastianbirk]