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Commits on Oct 20, 2017
  1. Update

    jakob-wirbel committed Oct 20, 2017
Commits on Jan 3, 2017
  1. Deleted files for github pages on master branch, since we are going t…

    jakob-wirbel committed Jan 3, 2017
    …o use gh-pages branch for the website.
  2. Set theme jekyll-theme-dinky

    gabora committed Jan 3, 2017
  3. Delete index.html

    gabora committed Jan 3, 2017
  4. h md

    gabora committed Jan 3, 2017
  5. hw example

    gabora committed Jan 3, 2017
Commits on Aug 24, 2016
Commits on Aug 11, 2016
  1. Changes in the networkin script so that it can automatically import o…

    jakob-wirbel committed Aug 11, 2016
    …utput from networkin web and the local version of networkin, changed gitignore in order to disregard the example networkin output file
Commits on Aug 10, 2016
Commits on Aug 9, 2016
  1. Removed the fact that the user has to supply mP and delta for KSEA me…

    jakob-wirbel committed Aug 9, 2016
    …an: mean and std will be inferred from data if not supplied.
Commits on Aug 7, 2016
  1. Changes for compatibility with python3: print function with parenthes…

    jakob-wirbel committed Aug 7, 2016
    …es, modified import statements, Exception in stead of StandardError
Commits on Jul 26, 2016
  1. Updated default parameters for the function to create the adjacency m…

    jakob-wirbel committed Jul 26, 2016
    …atrix, per default will now import PhosphoSitePlus and Signor data from pypath. Modified accordingly.
Commits on Jul 8, 2016
  1. Updated function to get kinase substrate interactions: now includes t…

    jakob-wirbel committed Jul 8, 2016
    …he parameter 'organism' to obtain prior knowledge from different organisms: human (unchanged), mouse (from PhosphoSitePlus and RegPhos), and yeast (from PhosphoGRID).
Commits on Jul 7, 2016
Commits on Jul 6, 2016
  1. Included yeast sequences, also in networkin-module, added a line to p…

    jakob-wirbel committed Jul 6, 2016
    …rint an error if the protein ID was not found in the swissprot release
Commits on Jul 5, 2016
Commits on Jul 4, 2016
  1. Updated README

    jakob-wirbel committed Jul 4, 2016
  2. Updated README-file: Added links to publications and group, started q…

    jakob-wirbel committed Jul 4, 2016
    …uick-start section (test).
Commits on Jul 2, 2016
  1. Removed error in the construction of the adjacency matrix from networ…

    jakob-wirbel committed Jul 2, 2016
    …kin output file: dropna worked with how='any' by default, but should have worked with how='all'.
  2. Reorganisation of code: migrated most utility functions into utils sc…

    jakob-wirbel committed Jul 2, 2016
    …ript, started networkin-interface with functions to create networkin input files and read networkin output, finally a function to calculate the kinase activity score as mean, weighted with the networkin prediction scores. Additionally, cleaned ksea code a bit (e.g. pandas import)
Commits on Jul 1, 2016
  1. Updated gitignore in order to disregard the files resulting from buil…

    jakob-wirbel committed Jul 1, 2016
    …ding the package in the directory
Commits on Jun 23, 2016
  1. Changed function to import networKIN results as adjancency matrix: ei…

    jakob-wirbel committed Jun 23, 2016
    …ther normalise across phosphosites or return binary matrix based on a cut-off for the score
  2. Updated README

    jakob-wirbel committed Jun 23, 2016
Commits on Jun 20, 2016
  1. Updated MANIFEST script in order to include data in the python packag…

    jakob-wirbel committed Jun 20, 2016
    …e, added a function to read in the example data from the publication from de Graaf et al.