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Kronik2
Averagine.dat
CAveragine.cpp
CAveragine.h
CHardklor.cpp
CHardklor.h
CHardklor2.cpp
CHardklor2.h
CHardklorFileReader.cpp
CHardklorFileReader.h
CHardklorOutput.cpp
CHardklorOutput.h
CHardklorParser.cpp
CHardklorParser.h
CHardklorProtein.cpp
CHardklorProtein.h
CHardklorSetting.cpp
CHardklorSetting.h
CHardklorVariant.cpp
CHardklorVariant.h
CMercury8.cpp
CMercury8.h
CModelLibrary.cpp
CModelLibrary.h
CNoiseReduction.cpp
CNoiseReduction.h
CPeriodicTable.cpp
CPeriodicTable.h
CSpecAnalyze.cpp
CSpecAnalyze.h
CSplitSpectrum.cpp
CSplitSpectrum.h
FFT-HK.cpp
FFT-HK.h
FFT.cpp
FFT.h
Hardklor.conf
Hardklor.dat
HardklorApp.cpp
HardklorTypes.h
ISOTOPE.DAT
ISOTOPE.ORIG
Makefile
README.txt
S2N.cpp
S2N.h
Smooth.cpp
Smooth.h
SpecAnalyzeSupport.cpp
SpecAnalyzeSupport.h
mercury.h

README.txt

App: Hardklor
Purpose: Analyze mass spectra

Version History
------------------------------------------
1.0 - Apr 17 2007 - Stable release
1.01 - May 17 2007 - Recompiled with latest MSToolkit(1.1)
1.02 - Jun 15 2007 - Fixed monoisotopic mass bug
1.03 - Aug 29 2007 - Added sensitivity level parameter - much better low abundance peptide performance. Some changes made to Mercury

1.1 - Sep 29 2007 - Added mzXML file support and compressed .cms1 & .cms2 support. Several bugfixes, including better S/N processing.

1.11 - Jan 16 2008 - Fixed bugs in MSToolkit 64-bit file support. Modified default Hardklor settings.

1.20 - Feb 6 2008
  * Fixed user-defined scan window bug. 
  * Allows reading of centroid data (-c). No signal-to-noise processing is done for this option.
  * Can set a static S/N cutoff for entire scan. This optimizes Orbitrap and LTQ-FT data analysis. See documentation.
  * Allows substitution of a user-defined molecule for averagine (-mol). Note: still in testing stages.
  * Toggle isotope distribution area for output in place of base isotope peak instensity (-da).
  * Minor speed improvements.

1.22 - Apr 24 2008
  * Minor Bug Fixes
  * Upgraded MSToolkit software to 2.42

1.23 - Oct 24 2008
  * Improvements to spectrum dividing functions

1.24 - Dec 11 2008
  * Bugfixes for zoomscan and ultrazoomscan files

1.25 - Mar 3 2009
  * Additional support for ms2 file format
  * Bugfix to MSToolkit (forked from SVN)

1.26 - Apr 30 2009
  * Upgraded MSToolkit
  * Bugfix for rare S/N ratio calculation error
  * Potentially fixed rare, irregular, and odd 64-bit linux behavior

1.27 - Aug 13 2009
  * Filenames and their paths can have spaces if entire path and filename is contained in quotes

1.28 - Sep 2 2009
  * Writes results in XML format with the following parameter: -xml true

1.30 - Sep 13 2009
  * Bugfix to QuickCharge algorithm

1.31 - Oct 1 2009
  * Added new signal detection algorithm. It operates on the assumption valid signal peaks persist over multiple adjacent spectra.
    Detailed description of its usage can be found in the online documentation.