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Platinum analysis figures and TCGA init #94 and #95 #96

Merged
merged 18 commits into from
May 8, 2024
Merged

Platinum analysis figures and TCGA init #94 and #95 #96

merged 18 commits into from
May 8, 2024

Commits on Apr 12, 2024

  1. feat(datasets)): +platinum to config

    @jyaacoub
    jyaacoub committed Apr 12, 2024
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  2. fix(platinum): dataset creation for platinum 

    + fixed cmap_p in platinum for dataset creation
+ added OPT_REQUIRES_MSA_ALN in config
    @jyaacoub
    jyaacoub committed Apr 12, 2024
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Commits on Apr 15, 2024

  1. results: reran aflow model after more hyperparam tuning

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    jyaacoub committed Apr 15, 2024
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Commits on Apr 22, 2024

  1. fix(datasets): sdf path for platinum

    @jyaacoub
    jyaacoub committed Apr 22, 2024
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Commits on Apr 30, 2024

  1. fix(platinum): dataset creation and init

    @jyaacoub
    jyaacoub committed Apr 30, 2024
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  2. fix(test): model.eval is needed to ignore dropouts

    @jyaacoub
    jyaacoub committed Apr 30, 2024
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  3. feat: platinum analysis #94 

    significant mutation analysis
    @jyaacoub
    jyaacoub committed Apr 30, 2024
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Commits on May 1, 2024

  1. results(platinum): predictive performance #94

    @jyaacoub
    jyaacoub committed May 1, 2024
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  2. results: 2.mutation impact #94

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    jyaacoub committed May 1, 2024
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Commits on May 2, 2024

  1. fix: seperate get_metrics function from get_save_metrics

    @jyaacoub
    jyaacoub committed May 2, 2024
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  2. refactor(figures.py): clean up code #94

    @jyaacoub
    jyaacoub committed May 2, 2024
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  3. results: stratified dpkd results fn #94

    @jyaacoub
    jyaacoub committed May 2, 2024
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  4. fix: dynamic n_mut markdown + fig #94

    @jyaacoub
    jyaacoub committed May 2, 2024
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  5. results: stratified in_pocket metrics #94

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    jyaacoub committed May 2, 2024
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Commits on May 3, 2024

  1. results: 1. predictive performance #94

    @jyaacoub
    jyaacoub committed May 3, 2024
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Commits on May 4, 2024

  1. fix: div by 0 err for conf_matrix #94

    @jyaacoub
    jyaacoub committed May 4, 2024
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Commits on May 7, 2024

  1. feat(utils): mapping fn pdb2uniprot for #95

    @jyaacoub
    jyaacoub committed May 7, 2024
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  2. fix: map MAF mutations to PDB ids from platinum #95

    @jyaacoub
    jyaacoub committed May 7, 2024
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