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Commits on Jul 15, 2018
  1. Chromosome id fix

    ozgunharmanci committed Jul 15, 2018
    Somtimes chromosome and contig/ names may contain characters that cannot go as file names. Fix added to replace these characters with underscore.
Commits on Jun 2, 2018
  1. Issue with IGV Peak Vieweing

    ozgunharmanci committed Jun 2, 2018
    Added a note in the README to explain viewing MUSIC peaks in IGV
Commits on Jun 15, 2017
  1. Code cleanup

    ozgunharmanci committed Jun 15, 2017
    Code cleanup
  2. Cleanup

    ozgunharmanci committed Jun 15, 2017
    Code cleanup
  3. Compilation warning fixes

    ozgunharmanci committed Jun 15, 2017
    Fixed warnings of compilations
  4. Changes in read processing

    ozgunharmanci committed Jun 15, 2017
    MUSIC failed when all the reads in an experiment are clipped. This is
    changed so that MUSIC processes clipped reads, too.
Commits on Mar 8, 2016
  1. run_MUSIC script SAM file fix

    ozgunharmanci committed Mar 8, 2016
    run_MUSIC script SAM file fix
  2. Bug Fix for lowly covered chromsomes

    ozgunharmanci committed Mar 8, 2016
    Normalization problems with lowly covered chromosomes is fixed. Thanks
    to Shuang Liu from Yale.
Commits on Feb 15, 2016
  1. More bug fix

    ozgunharmanci committed Feb 15, 2016
    Small bug fix and cleanup in peak calling
  2. bug fix and tuning

    ozgunharmanci committed Feb 15, 2016
    Fixed a bug in single sample ER calling and also performed tuning for
    making FPR uniform in single sample calling.
Commits on Dec 18, 2015
  1. Bug fix

    ozgunharmanci committed Dec 18, 2015
    Fixed a bug introduced in the last change. Thanks to Carsten Kuenne for
    pointing out.
Commits on Dec 17, 2015
  1. Readme update

    ozgunharmanci committed Dec 17, 2015
    Readme update
  2. Readme update

    ozgunharmanci committed Dec 17, 2015
    Readme update
  3. Command line cleanup, peak calling w/o controls.

    ozgunharmanci committed Dec 17, 2015
    Cleaned up the command line output while peak calling.
    
    Added the ability to call peaks w/o controls.
Commits on Oct 9, 2015
  1. Bug fixes, updates

    ozgunharmanci committed Oct 9, 2015
    Bug fixes and updates for slightly faster ER calling.
    (Thx to Carsten Kuenne from Max Planck Institute for pointing out a
    bug.)
Commits on Jul 11, 2015
  1. README update

    ozgunharmanci committed Jul 11, 2015
    README update
  2. README update

    ozgunharmanci committed Jul 11, 2015
    README update
Commits on Jul 6, 2015
  1. Bug fixes

    ozgunharmanci committed Jul 6, 2015
    Several bug fixes for uninitialized memory, which potentiallu caused
    random segfaults.
    
    Thanks to Simon G. C for pointing out the segfaults.
Commits on Apr 28, 2015
  1. Readme update

    ozgunharmanci committed Apr 28, 2015
    Readme update
Commits on Apr 22, 2015
  1. Small fixes

    ozgunharmanci committed Apr 22, 2015
    Small fixes
  2. Several small fixes

    ozgunharmanci committed Apr 22, 2015
    Several small fixes
Commits on Apr 13, 2015
  1. minor bug fixes

    ozgunharmanci committed Apr 13, 2015
    minor bug fixes
Commits on Apr 12, 2015
  1. broadpeak output update

    ozgunharmanci committed Apr 12, 2015
    broadpeak output update
Commits on Apr 11, 2015
  1. broadPeak output update

    ozgunharmanci committed Apr 11, 2015
    broadPeak output update
  2. broadpeak format update

    ozgunharmanci committed Apr 11, 2015
    broadpeak format update
  3. Broadpeak formatted output

    ozgunharmanci committed Apr 11, 2015
    Broadpeak formatted output
  4. Updates to running script

    ozgunharmanci committed Apr 11, 2015
    Updates to running script
Commits on Apr 9, 2015
  1. Readme updates

    ozgunharmanci committed Apr 9, 2015
    Readme updates
  2. Readme update

    ozgunharmanci committed Apr 9, 2015
    Readme  update
  3. Readme update

    ozgunharmanci committed Apr 9, 2015
    Readme update
Commits on Apr 8, 2015
  1. Readme fix

    ozgunharmanci committed Apr 8, 2015
    Readme fix
  2. Bug fixes, performance tune-ups

    ozgunharmanci committed Apr 8, 2015
    This version contains many improvements in the timing and accuracy of ER
    calls. One main addition is automatic selection of l_p parameter and a
    script that can be used to run MUSIC with default parameters.
Commits on Mar 24, 2015
  1. Documentation update

    ozgunharmanci committed Mar 24, 2015
    Documentation update
Commits on Mar 21, 2015
  1. readme fixes

    ozgunharmanci committed Mar 21, 2015
    readme fixes
  2. readme fixes

    ozgunharmanci committed Mar 21, 2015
    readme fixes