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102 patternmarkers all returning empty lists #103

Merged
merged 31 commits into from
Jun 5, 2024
Merged

102 patternmarkers all returning empty lists #103

merged 31 commits into from
Jun 5, 2024

Commits on May 2, 2024

  1. add a test for empty patternMarkers

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    dimalvovs committed May 2, 2024
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  2. fix threshold="all" from #102

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    dimalvovs committed May 2, 2024
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Commits on May 4, 2024

  1. add a test that fails on empty names

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    dimalvovs committed May 4, 2024
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  2. add a test to check A and P dim across modes

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    dimalvovs committed May 4, 2024
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  3. debug empty name test - make it fail

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    dimalvovs committed May 4, 2024
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Commits on May 5, 2024

  1. fix P dimensionality for sweeping

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    dimalvovs committed May 5, 2024
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  2. cleanup style, rm unused variable pmax

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    dimalvovs committed May 5, 2024
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  3. simplify loop

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    dimalvovs committed May 5, 2024
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  4. assign names to pass test

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    dimalvovs committed May 5, 2024
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  5. adjust style and close #102

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    dimalvovs committed May 5, 2024
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Commits on May 9, 2024

  1. add the original method back

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    dimalvovs committed May 9, 2024
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  2. make original patternMarkers work in object setting

    @dimalvovs
    dimalvovs committed May 9, 2024
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  3. update description

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    dimalvovs committed May 9, 2024
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  4. adjust vignette

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    dimalvovs committed May 9, 2024
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Commits on May 16, 2024

  1. add trivial functional test for threshold=cut

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    dimalvovs committed May 16, 2024
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Commits on May 22, 2024

  1. extend mock test to threshold=all (fails)

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    dimalvovs committed May 22, 2024
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Commits on May 29, 2024

  1. refactor patternMarkers, remove cut for now

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    dimalvovs committed May 29, 2024
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  2. remove cut from vignette

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    dimalvovs committed May 29, 2024
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  3. add a sorting test that patternMarkers fail

    @dimalvovs
    dimalvovs committed May 29, 2024
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  4. clean up tests

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    dimalvovs committed May 29, 2024
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  5. add a modified (a bit) KW edit

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    dimalvovs committed May 29, 2024
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  6. merge upstream

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    dimalvovs committed May 29, 2024
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Commits on May 30, 2024

  1. shorten test code - move mock creation to a fun

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    dimalvovs committed May 30, 2024
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Commits on Jun 3, 2024

  1. refactor patternMarkers

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    dimalvovs committed Jun 3, 2024
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  2. further simplify

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    dimalvovs committed Jun 3, 2024
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Commits on Jun 4, 2024

  1. fix implementation of custom-provided lp

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    dimalvovs committed Jun 4, 2024
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Commits on Jun 5, 2024

  1. bug fix use ranks vs stats values

    @dimalvovs
    dimalvovs committed Jun 5, 2024
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  2. add test that checks that all genes are returned for threshold="all"

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    dimalvovs committed Jun 5, 2024
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  3. add lp testing

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    dimalvovs committed Jun 5, 2024
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  4. bump version

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    dimalvovs committed Jun 5, 2024
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  5. bump version

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    dimalvovs committed Jun 5, 2024
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