GitHub - ProteoWizard/hardklor: some customization for Skyline use, hopefully will contribute back to mhoopman eventually

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some customization for Skyline use, hopefully will contribute back to mhoopman eventually

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Name		Name	Last commit message	Last commit date
Latest commit History 59 Commits
Images		Images
Kronik2		Kronik2
Averagine.dat		Averagine.dat
CAveragine.cpp		CAveragine.cpp
CAveragine.h		CAveragine.h
CHardklor.cpp		CHardklor.cpp
CHardklor.h		CHardklor.h
CHardklor2.cpp		CHardklor2.cpp
CHardklor2.h		CHardklor2.h
CHardklorFileReader.cpp		CHardklorFileReader.cpp
CHardklorFileReader.h		CHardklorFileReader.h
CHardklorOutput.cpp		CHardklorOutput.cpp
CHardklorOutput.h		CHardklorOutput.h
CHardklorParser.cpp		CHardklorParser.cpp
CHardklorParser.h		CHardklorParser.h
CHardklorProtein.cpp		CHardklorProtein.cpp
CHardklorProtein.h		CHardklorProtein.h
CHardklorSetting.cpp		CHardklorSetting.cpp
CHardklorSetting.h		CHardklorSetting.h
CHardklorVariant.cpp		CHardklorVariant.cpp
CHardklorVariant.h		CHardklorVariant.h
CMercury8.cpp		CMercury8.cpp
CMercury8.h		CMercury8.h
CModelLibrary.cpp		CModelLibrary.cpp
CModelLibrary.h		CModelLibrary.h
CNoiseReduction.cpp		CNoiseReduction.cpp
CNoiseReduction.h		CNoiseReduction.h
CPeriodicTable.cpp		CPeriodicTable.cpp
CPeriodicTable.h		CPeriodicTable.h
CSpecAnalyze.cpp		CSpecAnalyze.cpp
CSpecAnalyze.h		CSpecAnalyze.h
CSplitSpectrum.cpp		CSplitSpectrum.cpp
CSplitSpectrum.h		CSplitSpectrum.h
FFT-HK.cpp		FFT-HK.cpp
FFT-HK.h		FFT-HK.h
FFT.cpp		FFT.cpp
FFT.h		FFT.h
Hardklor.conf		Hardklor.conf
Hardklor.dat		Hardklor.dat
HardklorApp.cpp		HardklorApp.cpp
HardklorTypes.h		HardklorTypes.h
ISOTOPE.DAT		ISOTOPE.DAT
ISOTOPE.ORIG		ISOTOPE.ORIG
Makefile		Makefile
README.txt		README.txt
S2N.cpp		S2N.cpp
S2N.h		S2N.h
Smooth.cpp		Smooth.cpp
Smooth.h		Smooth.h
SpecAnalyzeSupport.cpp		SpecAnalyzeSupport.cpp
SpecAnalyzeSupport.h		SpecAnalyzeSupport.h
mercury.h		mercury.h

Repository files navigation

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.