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reproducing with updated dependencies#36

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alxndrkalinin merged 17 commits intobroadinstitute:mainbroadinstitute/grit-benchmark:mainfrom alxndrkalinin:mainalxndrkalinin/grit-benchmark:mainCopy head branch name to clipboardMay 15, 2023

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Commits on Dec 7, 2022

• fix installation from environment.yml on apple silicon

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Commits on Dec 8, 2022

• manually remove NaN from aggregated sc perturbseq df

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• add alternative perturbseq environment yml config for Apple Silicon

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Commits on Dec 14, 2022

• fix figure environment config for Apple silicon

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Commits on Dec 22, 2022

• gitignore changes in data folder

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• restore single yml file for perturbseq processing env

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• add missing supplementary table of activities from the perturbseq paper

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Commits on Jan 11, 2023

• fix replicate group cols for grit calculation

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• calculate grit for perturbseq

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Commits on Jan 17, 2023

• WIP bump pycytominer to current version and re-run notebooks

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Commits on Jan 18, 2023

• rerun compare metrics

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• rerun perturbseq preprocessing

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• rerun figures

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• rerun nbconvert to scripts

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Commits on Jan 19, 2023

• add black & pre-commit

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• black formatting

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• rerun post-download processing

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