v0.3.0

A new plot_cpdb_chord that now plots the interactions properly as circos-style plots is now in place! it functions similar to the original plot_cpdb3/4 in the R package. Previously, the arcs would lead to situations where the sectors don't line up but not an issue anymore!

What's Changed

• update actions by @zktuong in #88
• pixi by @zktuong in #95
• fix badge by @zktuong in #96
• Update dependabot-autoapprove.yml by @zktuong in #97
• Update tests.yaml by @zktuong in #98
• maybe i cna badge by installing from github directly by @zktuong in #99
• fix the incorrect git attribute? by @zktuong in #100
• Update .gitattributes by @zktuong in #101
• New plot cpdb chord by @zktuong in #102
• Update publish_pypi.yaml by @zktuong in #106

Dependabot updates

• pip prod(deps): update sphinx requirement from <8 to <9 by @dependabot in #86
• pip prod(deps): update sphinx-autodoc-typehints requirement from <=2.3.0 to <=2.5.0 by @dependabot in #90
• pip prod(deps): update numpy requirement from <=2.1.3 to <=2.2.0 by @dependabot in #91
• pip prod(deps): update numpy requirement from <=2.2.0 to <=2.2.1 by @dependabot in #92
• pip prod(deps): update nbsphinx requirement from <=0.9.5 to <=0.9.6 by @dependabot in #93
• pip prod(deps): update sphinx-autodoc-typehints requirement from <=2.5.0 to <=3.0.0 by @dependabot in #94
• pip prod(deps): update sphinx requirement from <8 to <9 by @dependabot in #103
• pip prod(deps): update numpy requirement from <=2.1.3 to <=2.2.1 by @dependabot in #104
• pip prod(deps): update anndata requirement from <0.11.2,>=0.7.6 to >=0.7.6,<0.11.4 by @dependabot in #105

Full Changelog: v0.2.6...v0.3.0

v0.2.6

Minor update to relax dependency requirements, particularly with anndata. Also pinned plotnine because there's some breaking changes in the latest versions and i haven't work out how to get around them.

What's Changed

• pip prod(deps): update sphinx-rtd-theme requirement from <=2.0.0 to <=3.0.2 by @dependabot in #81
• Update formatting.yaml by @zktuong in #80
• update dependencies by @zktuong in #82
• pip prod(deps): update sphinx-autodoc-typehints requirement from <=1.23.0 to <=2.3.0 by @dependabot in #83
• update deploy by @zktuong in #84

Full Changelog: v0.2.5...v0.2.6

v0.2.5

What's Changed

• Add interacting pairs option by @zktuong in #72
• Fix two some small problems by @nictru in #78

Dependabot updates

• pip prod(deps): update sphinx requirement from <7 to <8 by @dependabot in #75
• pip prod(deps): update nbsphinx requirement from <=0.9.4 to <=0.9.5 by @dependabot in #76

New Contributors

• @nictru made their first contribution in #78

Full Changelog: v0.2.4...v0.2.5

v0.2.4

What's Changed

• Update plot_cpdb_heatmap.py by @zktuong in #67
• Issue fix min p value by @ali-harasty in #70

Dependabot updates

• pip prod(deps): update nbsphinx requirement from <=0.9.3 to <=0.9.4 by @dependabot in #68

New Contributors

• @ali-harasty made their first contribution in #70

Full Changelog: v0.2.3...v0.2.4

v0.2.3

What's Changed

Fix some bugs introduced in v0.2.2 while trying to fix the uneven pvalues/relevant interaction files with the new cellphonedb v5 outputs

Added a new option to heatmap to allow slicing of only relevant cell types.

• Pin versions by @zktuong in #54
• check if incorrect dimensions and pad numbers if missing by @zktuong in #57
• Add celltypes option to heatmap by @zktuong in #58
• Revert "check if incorrect dimensions and pad numbers if missing (#57)" by @zktuong in #61
• attempt to fix missing interactions 1 by @zktuong in #62
• fix uneven columns and rows by @zktuong in #63

Dependabot updates

• pip prod(deps): update readthedocs-sphinx-ext requirement from <=2.2.3 to <=2.2.4 by @dependabot in #49
• pip prod(deps): update readthedocs-sphinx-ext requirement from <=2.2.4 to <=2.2.5 by @dependabot in #50
• Bump tj-actions/changed-files from 35 to 41 in /.github/workflows by @dependabot in #52
• pip prod(deps): update pandas requirement from ^1.5.0 to >=1.5,<3.0 by @dependabot in #55
• pip prod(deps): update seaborn requirement from ^0.12.0 to >=0.12,<0.14 by @dependabot in #56

Full Changelog: v0.2.1...v0.2.3

v0.2.1

Mostly minor bug fixing to deal with indexing proglem

What's Changed

• pip prod(deps): update readthedocs-sphinx-ext requirement from <=2.2.2 to <=2.2.3 by @dependabot in #44
• Update README.rst by @zktuong in #45
• fix duplicate rownames introduced in cellphonedb v5 by @zktuong in #48
• pip prod(deps): update sphinx-rtd-theme requirement from <=1.3.0 to <=2.0.0 by @dependabot in #47

Full Changelog: v0.2.0...v0.2.1

v0.2.0

What's Changed

Miainly compatibility with upcoming cellphonedb version

Detailed notes:

• Create dependabot.yml by @zktuong in #26
• pip prod(deps): update anndata requirement from ^0.7.6 to >=0.7.6,<0.10.0 by @dependabot in #27
• update ci by @zktuong in #28
• Bugfix for significant interactions by @zktuong in #30
• check to see if this fixes dependabot probs by @zktuong in #35
• pip prod(deps): update readthedocs-sphinx-ext requirement from <=2.2.0 to <=2.2.2 by @dependabot in #32
• pip prod(deps): update sphinx-rtd-theme requirement from <=1.2.0 to <=1.2.2 by @dependabot in #33
• pip prod(deps): update nbsphinx requirement from <=0.9.1 to <=0.9.2 by @dependabot in #34
• Update tests.yaml by @zktuong in #36
• pip prod(deps): update sphinx-rtd-theme requirement from <=1.2.2 to <=1.3.0 by @dependabot in #41
• pip prod(deps): update nbsphinx requirement from <=0.9.2 to <=0.9.3 by @dependabot in #42
• Prep for v5 by @zktuong in #38

New Contributors

• @dependabot made their first contribution in #27

Full Changelog: v0.1.10...v0.2.0

v0.1.10

What's Changed

• compliance with pandas2.0 by @zktuong in #24
• fix the output table by @zktuong in #25

Full Changelog: v0.1.9...v0.1.10

v0.1.9

What's Changed

• Fix heatmap symmetry by @zktuong in #23

Full Changelog: v0.1.8...v0.1.9

v0.1.8

What's Changed

• Fix bug Heatmap by @Tu-feng in #18

Full Changelog: v0.1.7...v0.1.8