DNACE 1.0.1: Bug fixes & new datasets

What's Changed

• bump version: v1.0.0 -> v1.0.1-dev by @RemyLau in #305
• change python-igraph to igraph by @szhorvat in #315
• pin lower version of scipy and scikit-mis version for python 3.8 by @RemyLau in #325
• add 5 datasets by @xingzhongyu in #328
• add 4 clustering datasets by @xingzhongyu in #331
• fix deprecated option by @RemyLau in #336
• Preprocessing benchmarking by @xingzhongyu in #337
• expfeat: implement anndata transform adaptor by @RemyLau in #341
• upgrade tox test; create lint workflow by @RemyLau in #349
• fix: remove pyro-ppl from direct deps to prevent install torch early by @RemyLau in #352
• readme: action runner script with instruction by @RemyLau in #353
• fix readme: conda activation; closes #354 by @RemyLau in #356
• DANCE V1.0.0 benchmark production by @RemyLau in #371
• fix: rtd config by @RemyLau in #372
• fix: tests by @RemyLau in #373
• bumpversion: 1.0.1.dev -> 1.0.1 by @RemyLau in #376

Dependencies

• build(deps): bump pandas from 2.0.2 to 2.0.3 by @dependabot in #304
• build(deps): bump scipy from 1.10.1 to 1.11.1 by @dependabot in #303
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #309
• build(deps): bump leidenalg from 0.9.1 to 0.10.0 by @dependabot in #308
• build(deps): bump opencv-python from 4.7.0.72 to 4.8.0.74 by @dependabot in #307
• build(deps): bump scikit-learn from 1.2.2 to 1.3.0 by @dependabot in #306
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #313
• build(deps): bump threadpoolctl from 3.1.0 to 3.2.0 by @dependabot in #314
• build(deps-dev): bump tox from 4.6.3 to 4.6.4 by @dependabot in #310
• build(deps): bump scikit-misc from 0.2.0 to 0.3.0 by @dependabot in #312
• build(deps): bump torchnmf from 0.3.4 to 0.3.5 by @dependabot in #311
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #318
• build(deps): bump pyro-ppl from 1.8.5 to 1.8.6 by @dependabot in #317
• build(deps): bump leidenalg from 0.10.0 to 0.10.1 by @dependabot in #316
• build(deps-dev): bump tox from 4.6.4 to 4.8.0 by @dependabot in #319
• build(deps): bump tqdm from 4.65.0 to 4.66.1 by @dependabot in #321
• build(deps): bump opencv-python from 4.8.0.74 to 4.8.0.76 by @dependabot in #320
• build(deps-dev): bump tox from 4.6.4 to 4.9.0 by @dependabot in #323
• build(deps): bump scipy from 1.11.1 to 1.11.2 by @dependabot in #322
• build(deps): bump igraph from 0.10.1 to 0.10.6 by @dependabot in #324
• build(deps-dev): bump tox from 4.9.0 to 4.10.0 by @dependabot in #327
• build(deps): bump sphinx-rtd-theme from 1.2.2 to 1.3.0 by @dependabot in #326
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #330
• build(deps): bump scanpy from 1.9.3 to 1.9.4 by @dependabot in #329
• build(deps-dev): bump pytest from 7.4.0 to 7.4.1 by @dependabot in #335
• build(deps-dev): bump pre-commit from 3.3.3 to 3.4.0 by @dependabot in #333
• build(deps): bump pandas from 2.0.3 to 2.1.0 by @dependabot in #332
• build(deps-dev): bump tox from 4.10.0 to 4.11.1 by @dependabot in #334
• build(deps-dev): bump tox from 4.11.1 to 4.11.3 by @dependabot in #340
• build(deps-dev): bump pytest from 7.4.1 to 7.4.2 by @dependabot in #339
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #343
• build(deps): bump igraph from 0.10.6 to 0.10.8 by @dependabot in #342
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #347
• build(deps): bump pandas from 2.1.0 to 2.1.1 by @dependabot in #344
• build(deps): bump scikit-learn from 1.3.0 to 1.3.1 by @dependabot in #346
• build(deps): bump scipy from 1.11.2 to 1.11.3 by @dependabot in #348
• build(deps): bump opencv-python from 4.8.0.76 to 4.8.1.78 by @dependabot in #350
• build(deps): bump scanpy from 1.9.4 to 1.9.5 by @dependabot in #338
• build(deps): bump tables from 3.8.0 to 3.9.1 by @dependabot in #355
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #357
• build(deps-dev): bump pre-commit from 3.4.0 to 3.5.0 by @dependabot in #359
• build(deps): bump h5py from 3.9.0 to 3.10.0 by @dependabot in #360
• [pre-commit.ci] pre-commit autoupdate by @pre-commit-ci in #368
• build(deps): bump scikit-learn from 1.3.1 to 1.3.2 by @dependabot in #366
• build(deps): bump networkx from 3.1 to 3.2.1 by @dependabot in #365

New Contributors

• @szhorvat made their first contribution in #315
• @xingzhongyu made their first contribution in #328

Full Changelog: v1.0.0...v1.0.1