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- 12 commits
- 62 files changed
- 4 contributors
Commits on Nov 10, 2020
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Louvain is buggy and not recommended, as per scverse/scanpy#1191 (comment)
Commits on Jan 19, 2021
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Avoid filtering in normalization
If cells are filtered in this stage, scran throws an error: `error in evaluating the argument 'object' in selecting a method for function 'sizeFactors': 'ncol(x)' is not equal to 'length(clusters)'`
Commits on May 9, 2022
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Reformat and restructure the repository to include pre-commit and better github actions workflows. Commits: * Add pre-commits * Run pre-commit all files * fix missing imports in tests * update github actions file * add pre-commit as dev dependency * split github actions workflows * move flake8 args to setup.cfg * Remove pre-commit separate workflow, update testing workflow * Deploy package in GA * update pre-commit config to scverse cookiecutter * fixed flake8 issues * added status badges * add separate build workflow * add more badges * fix linting error for build workflow * update pre-commit installation * constrain build to main pushes and prs * move build to test workflow * build as part of test workflow Co-authored-by: Michaela Mueller <michaela.mueller@helmholtz-muenchen.de>
Commits on May 13, 2022
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Fix duplicate cols scanorama (#306)
* Add pre-commits (cherry picked from commit c4ae5fa) * Format integration.py * Remove duplicate cols from adatas in scanorama * Refactor code * remove .o file * moved concatenation code to utils file * fixed merge_adata input Co-authored-by: Michaela Mueller <michaela.mueller@helmholtz-muenchen.de>
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Fix scanorama batch reordering (#309)
* include scanorama in GA install * add test for scanorama * fix category return when splitting adata * fix scaling test * update scanorama NMI scores * use near exact check for optimal NMI * less exact check for scanorama nmi * add more exact test for clustering * skip integrationm method tests for macos * separate batch col check and scanora run tests * more exact clustering check
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Commits on May 30, 2022
Commits on Jun 22, 2022
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