Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

Ndv cross validation #47

Open
wants to merge 21 commits into
base: master
Choose a base branch
from
Open

Ndv cross validation #47

wants to merge 21 commits into from

Commits on Jul 25, 2017

  1. cross-validation implementation

    @nickdeveaux
    nickdeveaux committed Jul 25, 2017
    Configuration menu
    Copy the full SHA
    24f2cb5 View commit details
    Browse the repository at this point in the history

  2. stat utils

    @nickdeveaux
    nickdeveaux committed Jul 25, 2017
    Configuration menu
    Copy the full SHA
    dbc09ae View commit details
    Browse the repository at this point in the history

Commits on Jul 26, 2017

  1. run yeast with 4 bootstraps

    @nickdeveaux
    nickdeveaux committed Jul 26, 2017
    Configuration menu
    Copy the full SHA
    2341874 View commit details
    Browse the repository at this point in the history

Commits on Aug 18, 2017

  1. breaking it up by blocks

    @nickdeveaux
    nickdeveaux committed Aug 18, 2017
    Configuration menu
    Copy the full SHA
    c570ce2 View commit details
    Browse the repository at this point in the history

Commits on Aug 24, 2017

  1. workflow runner

    @nickdeveaux
    nickdeveaux committed Aug 24, 2017
    Configuration menu
    Copy the full SHA
    7597732 View commit details
    Browse the repository at this point in the history

Commits on Sep 6, 2017

  1. CV now prints an image of each gene

    @nickdeveaux
    nickdeveaux committed Sep 6, 2017
    Configuration menu
    Copy the full SHA
    b4f1096 View commit details
    Browse the repository at this point in the history

Commits on Sep 7, 2017

  1. adding back bsubtilis runner

    @nickdeveaux
    nickdeveaux committed Sep 7, 2017
    Configuration menu
    Copy the full SHA
    6dc875c View commit details
    Browse the repository at this point in the history

Commits on Sep 19, 2017

  1. moving around functions to make easier to test

    @nickdeveaux
    nickdeveaux committed Sep 19, 2017
    Configuration menu
    Copy the full SHA
    6ec2a95 View commit details
    Browse the repository at this point in the history

  2. check for predictors is now looking at >0 (issue discovered by writin… 

    …g test)
    @nickdeveaux
    nickdeveaux committed Sep 19, 2017
    Configuration menu
    Copy the full SHA
    2ad1467 View commit details
    Browse the repository at this point in the history

  3. first stat_util test for compute_error

    @nickdeveaux
    nickdeveaux committed Sep 19, 2017
    Configuration menu
    Copy the full SHA
    03fc86d View commit details
    Browse the repository at this point in the history

Commits on Sep 20, 2017

  1. test for random X: MSE is below for train versus test

    @nickdeveaux
    nickdeveaux committed Sep 20, 2017
    Configuration menu
    Copy the full SHA
    53df0c7 View commit details
    Browse the repository at this point in the history

  2. made tests print nothing and run faster (10 iterations each)

    @nickdeveaux
    nickdeveaux committed Sep 20, 2017
    Configuration menu
    Copy the full SHA
    f4561b3 View commit details
    Browse the repository at this point in the history

  3. merge of master

    @nickdeveaux
    nickdeveaux committed Sep 20, 2017
    Configuration menu
    Copy the full SHA
    4e0fd7c View commit details
    Browse the repository at this point in the history

  4. removed prints

    @nickdeveaux
    nickdeveaux committed Sep 20, 2017
    Configuration menu
    Copy the full SHA
    46667c5 View commit details
    Browse the repository at this point in the history

Commits on Sep 22, 2017

  1. bbsr tfa workflow for cross validation stops printing plots, and stor… 

    …es MSE per gene
    @nickdeveaux
    nickdeveaux committed Sep 22, 2017
    Configuration menu
    Copy the full SHA
    4ae9789 View commit details
    Browse the repository at this point in the history

  2. accept that some dfs will have NANs that need to be cleared up

    @nickdeveaux
    nickdeveaux committed Sep 22, 2017
    Configuration menu
    Copy the full SHA
    6bbd9d3 View commit details
    Browse the repository at this point in the history

  3. check for time series equal to True, boolean object

    @nickdeveaux
    nickdeveaux committed Sep 22, 2017
    Configuration menu
    Copy the full SHA
    19a8a8f View commit details
    Browse the repository at this point in the history

  4. defined original MSE dict

    @nickdeveaux
    nickdeveaux committed Sep 22, 2017
    Configuration menu
    Copy the full SHA
    8583113 View commit details
    Browse the repository at this point in the history

Commits on Sep 25, 2017

  1. access gene names from count dict to avoid self-reference

    @nickdeveaux
    nickdeveaux committed Sep 25, 2017
    Configuration menu
    Copy the full SHA
    3619452 View commit details
    Browse the repository at this point in the history

Commits on Oct 13, 2017

  1. updates

    @nickdeveaux
    nickdeveaux committed Oct 13, 2017
    Configuration menu
    Copy the full SHA
    f405ec0 View commit details
    Browse the repository at this point in the history

Commits on Oct 16, 2017

  1. updates to group replicates of steady state conditions together, assu… 

    …ming those replicate samples share the same prefix (beginning of string before the _ char)
    @nickdeveaux
    nickdeveaux committed Oct 16, 2017
    Configuration menu
    Copy the full SHA
    2f76bbe View commit details
    Browse the repository at this point in the history