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Refactor the dynamics #549

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Refactor the dynamics #549

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Commits on Jun 2, 2023

  1. create Dynamics class

    @Sichao25
    Sichao25 committed Jun 2, 2023
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  2. func to methods

    @Sichao25
    Sichao25 committed Jun 2, 2023
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  3. add sanity check method

    @Sichao25
    Sichao25 committed Jun 2, 2023
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Commits on Jun 7, 2023

  1. optimize structure

    @Sichao25
    Sichao25 committed Jun 7, 2023
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Commits on Jun 12, 2023

  1. reconstruct basic framework

    @Sichao25
    Sichao25 committed Jun 12, 2023
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  2. implement caller

    @Sichao25
    Sichao25 committed Jun 12, 2023
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Commits on Jun 13, 2023

  1. add sskin class

    @Sichao25
    Sichao25 committed Jun 13, 2023
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  2. modify the structure of labeled dynamics

    @Sichao25
    Sichao25 committed Jun 13, 2023
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  3. implement existing mix methods

    @Sichao25
    Sichao25 committed Jun 13, 2023
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  4. finalize wrapper

    @Sichao25
    Sichao25 committed Jun 13, 2023
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  5. debug wrapper and kin

    @Sichao25
    Sichao25 committed Jun 13, 2023
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Commits on Jun 14, 2023

  1. add base docstr and all typing

    @Sichao25
    Sichao25 committed Jun 14, 2023
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  2. add docstr for subclass

    @Sichao25
    Sichao25 committed Jun 14, 2023
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Commits on Jun 16, 2023

  1. add to tl init

    @Sichao25
    Sichao25 committed Jun 16, 2023
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  2. debug

    @Sichao25
    Sichao25 committed Jun 16, 2023
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Commits on Jun 19, 2023

  1. add subclass KineticsStormDynamics and upload storm.py to support Sto… 

    …rm's three stochastic model
    @QiangweiPeng
    QiangweiPeng committed Jun 19, 2023
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  2. Modify the relevant code to support cell-specific beta

    @QiangweiPeng
    QiangweiPeng committed Jun 19, 2023
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  3. Add code to moments.py that calculates the moments needed for the sto… 

    …rm method.
    @QiangweiPeng
    QiangweiPeng committed Jun 19, 2023
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Commits on Jun 21, 2023

  1. Added the parameter inference method storm for one-shot experiments

    @QiangweiPeng
    QiangweiPeng committed Jun 21, 2023
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  2. rename functions

    @Sichao25
    Sichao25 committed Jun 21, 2023
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Commits on Jul 6, 2023

  1. Merge branch 'Sichao25:master' into add_storm

    @QiangweiPeng
    QiangweiPeng authored Jul 6, 2023
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  2. Delete scEU-seq_CellCycle_CSP_CSZIP.py 

    delete test code
    @QiangweiPeng
    QiangweiPeng authored Jul 6, 2023
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  3. Delete cell_cycle_CSPss.py 

    delete test code
    @QiangweiPeng
    QiangweiPeng authored Jul 6, 2023
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Commits on Jul 7, 2023

  1. Merge branch 'add_storm' into refactor

    @QiangweiPeng
    QiangweiPeng authored Jul 7, 2023
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  2. reformat tab space

    @Sichao25
    Sichao25 committed Jul 7, 2023
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  3. rename storm func

    @Sichao25
    Sichao25 committed Jul 7, 2023
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  4. reformat storm

    @Sichao25
    Sichao25 committed Jul 7, 2023
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Commits on Jul 25, 2023

  1. create kinetic params est func

    @Sichao25
    Sichao25 committed Jul 25, 2023
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Commits on Jul 26, 2023

  1. create ss fit functions

    @Sichao25
    Sichao25 committed Jul 26, 2023
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  2. create kinetic params estimation class

    @Sichao25
    Sichao25 committed Jul 26, 2023
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  3. call refactored params estimation

    @Sichao25
    Sichao25 committed Jul 26, 2023
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Commits on Jul 27, 2023

  1. create docstr

    @Sichao25
    Sichao25 committed Jul 27, 2023
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Commits on Aug 22, 2023

  1. delete tutorial script

    @Sichao25
    Sichao25 committed Aug 22, 2023
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Commits on Sep 29, 2023

  1. Merge branch 'master' into refactor

    @Sichao25
    Sichao25 committed Sep 29, 2023
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  2. Merge branch 'master' into refactor

    @Sichao25
    Sichao25 committed Sep 29, 2023
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Commits on Oct 10, 2023

  1. Merge branch 'master' into refactor

    @Sichao25
    Sichao25 authored Oct 10, 2023
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