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

WIP: Integrate peakpredictor #44

Merged
merged 32 commits into from
Apr 23, 2021
Merged

WIP: Integrate peakpredictor #44

merged 32 commits into from
Apr 23, 2021

Commits on Feb 17, 2021

  1. initial start on peakpredictor

    @simonvh
    simonvh committed Feb 17, 2021
    Configuration menu
    Copy the full SHA
    53377b7 View commit details
    Browse the repository at this point in the history

Commits on Feb 22, 2021

  1. working version of peakpredictor

    @simonvh
    simonvh committed Feb 22, 2021
    Configuration menu
    Copy the full SHA
    0bbd205 View commit details
    Browse the repository at this point in the history

  2. merged changes

    @simonvh
    simonvh committed Feb 22, 2021
    Configuration menu
    Copy the full SHA
    883bad4 View commit details
    Browse the repository at this point in the history

  3. Merge branch 'refactor' into peakpredictor

    @simonvh
    simonvh authored Feb 22, 2021
    Configuration menu
    Copy the full SHA
    014a329 View commit details
    Browse the repository at this point in the history

  4. further integration of peakpredictor

    @simonvh
    simonvh committed Feb 22, 2021
    Configuration menu
    Copy the full SHA
    d62460b View commit details
    Browse the repository at this point in the history

  5. Merge branch 'peakpredictor' of github.com:simonvh/ANANSE into peakpr… 

    …edictor
    @simonvh
    simonvh committed Feb 22, 2021
    Configuration menu
    Copy the full SHA
    b7e574f View commit details
    Browse the repository at this point in the history

  6. simplifying loguru output a bit

    @simonvh
    simonvh committed Feb 22, 2021
    Configuration menu
    Copy the full SHA
    c29aeca View commit details
    Browse the repository at this point in the history

  7. removed enhancer command

    @simonvh
    simonvh committed Feb 22, 2021
    Configuration menu
    Copy the full SHA
    a0f44be View commit details
    Browse the repository at this point in the history

Commits on Feb 24, 2021

  1. working version of peakpredictor in ananse binding, with basic model … 

    …included
    @simonvh
    simonvh committed Feb 24, 2021
    Configuration menu
    Copy the full SHA
    f6fde89 View commit details
    Browse the repository at this point in the history

  2. Using factor from motif annotation, except for hg38 where we use a cu… 

    …rated list. Added ncpus option.
    @simonvh
    simonvh committed Feb 24, 2021
    Configuration menu
    Copy the full SHA
    e0ef5f9 View commit details
    Browse the repository at this point in the history

Commits on Feb 25, 2021

  1. small update

    @simonvh
    simonvh committed Feb 25, 2021
    Configuration menu
    Copy the full SHA
    6cc2dea View commit details
    Browse the repository at this point in the history

  2. merged refactor

    @simonvh
    simonvh committed Feb 25, 2021
    Configuration menu
    Copy the full SHA
    7752ebf View commit details
    Browse the repository at this point in the history

  3. merged

    @simonvh
    simonvh committed Feb 25, 2021
    Configuration menu
    Copy the full SHA
    d2f0edd View commit details
    Browse the repository at this point in the history

  4. black

    @simonvh
    simonvh committed Feb 25, 2021
    Configuration menu
    Copy the full SHA
    7eb6660 View commit details
    Browse the repository at this point in the history

  5. cleaned up the command line arguments

    @simonvh
    simonvh committed Feb 25, 2021
    Configuration menu
    Copy the full SHA
    1dec88b View commit details
    Browse the repository at this point in the history

  6. update docstring

    @simonvh
    simonvh committed Feb 25, 2021
    Configuration menu
    Copy the full SHA
    3f02b90 View commit details
    Browse the repository at this point in the history

  7. reduce code complexity

    @simonvh
    simonvh committed Feb 25, 2021
    Configuration menu
    Copy the full SHA
    c8281a6 View commit details
    Browse the repository at this point in the history

Commits on Feb 26, 2021

  1. do not use mouse TFs when predicting in human

    @simonvh
    simonvh committed Feb 26, 2021
    Configuration menu
    Copy the full SHA
    8a526b0 View commit details
    Browse the repository at this point in the history

Commits on Mar 3, 2021

  1. add missing files to MANIFEST; limit memory usage

    @simonvh
    simonvh committed Mar 3, 2021
    Configuration menu
    Copy the full SHA
    fe28f28 View commit details
    Browse the repository at this point in the history

  2. also compute expression network

    @simonvh
    simonvh committed Mar 3, 2021
    Configuration menu
    Copy the full SHA
    6abbc91 View commit details
    Browse the repository at this point in the history

Commits on Mar 24, 2021

  1. add factor activity to network

    @simonvh
    simonvh committed Mar 24, 2021
    Configuration menu
    Copy the full SHA
    2fc0eaa View commit details
    Browse the repository at this point in the history

Commits on Mar 25, 2021

  1. binding -> prob for influence

    @simonvh
    simonvh committed Mar 25, 2021
    Configuration menu
    Copy the full SHA
    e6777dc View commit details
    Browse the repository at this point in the history

  2. remove dependency online file

    @simonvh
    simonvh committed Mar 25, 2021
    Configuration menu
    Copy the full SHA
    1adf782 View commit details
    Browse the repository at this point in the history

  3. changed based on review

    @simonvh
    simonvh committed Mar 25, 2021
    Configuration menu
    Copy the full SHA
    f0d533c View commit details
    Browse the repository at this point in the history

Commits on Mar 29, 2021

  1. fix ananse import

    @bioqxu
    bioqxu committed Mar 29, 2021
    Configuration menu
    Copy the full SHA
    3183cae View commit details
    Browse the repository at this point in the history

Commits on Apr 15, 2021

  1. fix network columns

    @bioqxu
    bioqxu committed Apr 15, 2021
    Configuration menu
    Copy the full SHA
    0c07e12 View commit details
    Browse the repository at this point in the history

  2. fix bug in ananse network

    @simonvh
    simonvh committed Apr 15, 2021
    Configuration menu
    Copy the full SHA
    0f61b64 View commit details
    Browse the repository at this point in the history

Commits on Apr 19, 2021

  1. merged

    @simonvh
    simonvh committed Apr 19, 2021
    Configuration menu
    Copy the full SHA
    5cfafd4 View commit details
    Browse the repository at this point in the history

  2. fix custom motif file

    @simonvh
    simonvh committed Apr 19, 2021
    Configuration menu
    Copy the full SHA
    0cda2a8 View commit details
    Browse the repository at this point in the history

Commits on Apr 23, 2021

  1. remove tmp files

    @simonvh
    simonvh committed Apr 23, 2021
    Configuration menu
    Copy the full SHA
    e18c873 View commit details
    Browse the repository at this point in the history

  2. merge refactor

    @simonvh
    simonvh committed Apr 23, 2021
    Configuration menu
    Copy the full SHA
    bf2fcba View commit details
    Browse the repository at this point in the history

  3. merged

    @simonvh
    simonvh committed Apr 23, 2021
    Configuration menu
    Copy the full SHA
    1dec813 View commit details
    Browse the repository at this point in the history