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Add ANCOM-BC2 wrapper#136

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colinvwood wants to merge 24 commits intoqiime2:devqiime2/q2-composition:devfrom colinvwood:ancombc2colinvwood/q2-composition:ancombc2Copy head branch name to clipboard

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Commits on Oct 30, 2024

• pyright config

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• functionality needed to go from feature table, metadata -> phyloseq object

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• Merge branch 'dev' into ancombc2

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Commits on Nov 8, 2024

• WIP: working towards first rpy2 invocation of ancombc2

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Commits on Nov 12, 2024

• str vector not str

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Commits on Nov 25, 2024

• hyphen handling refactor, first types & formats

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• asymptotic cutoff parameter

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• linting

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Commits on Nov 26, 2024

• first tests

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• formula processing and metadata conversion tests

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• docstrings

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• ancombc2 citation

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Commits on Nov 28, 2024

• rpy2 dependency

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Commits on Dec 9, 2024

• rpy2 dependency the real way

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Commits on Jan 6, 2025

• use jsonl format for output dir fmt

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• new format tests

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• Merge branch 'dev' into ancombc2

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Commits on Jan 7, 2025

• small

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Commits on Jan 8, 2025

• rename columns post abc2, tests

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Commits on Jan 9, 2025

• post ANCOMBC2 data polishing, tests

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• integrate _process_categorical_variables into main function, other small changes

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• rename structural zero columns to allow variable/level separation and reference annotation

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Commits on Jan 10, 2025

• suppress R warnings

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• annotate categorical columns with variable and level as well

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