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group mutate revamp#109

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ppaxisa wants to merge 10 commits intotidyomics:develtidyomics/plyranges:develfrom ImmuneAxisa:mutate_grp_revampImmuneAxisa/plyranges:mutate_grp_revampCopy head branch name to clipboard

+101-40

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Commits on Sep 10, 2023

• modified mutate function to rely on dplyr for metadata. core columns mutate rely on old mutate_core and mutate_grp functions

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  cd72a0b

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Commits on Sep 11, 2023

• clean up mutate grouping after df conversion

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Commits on Sep 13, 2023

• repair id and name to column functions given new mutate function

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Commits on Sep 14, 2023

• ungroup range object before converting to df, avoids error

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Commits on Nov 10, 2023

• adjusting test to avoid using S4Vectors class with mutate. mutate seemed unnecessary to pass the test in the first place.

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• modify expand method for plyranges to accomodate list columns: no use of S4Vectors classes with mutate so everything is coerced to base::list type.

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• remove S4Vectors types from example with mutate

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  6e0ff1b

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• fix some check errors

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Commits on Jan 25, 2024

• vanilla dplyr mutate only on grouped ranges

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Commits on Jan 26, 2024

• roll back expand methods and test to use S4vectors List methods

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