1. SDUPrecalibrator.vb, MSQall/MSQuant/msquant/src/main/massbase/SDUPrecalibrator.vb
2. SDUPinternetUtilities.cs, MSQlib1/src/grid/SDUPinternetUtilities.cs
3. isotopeDistribution.cs, MSQlib1/src/massspec/isotopeDistribution.cs
4. isotopeDistributionTests.cs, MSQlib1/src/massspec/isotopeDistributionTests.cs
5. PILgeneralisedIonSeries.cs, MSQlib1/src/massspec/PILgeneralisedIonSeries.cs
6. PILgeneralisedIonSeriesTests.cs, MSQlib1/src/massspec/PILgeneralisedIonSeriesTests.cs
7. PILmassCalc.cs, MSQlib1/src/massspec/PILmassCalc.cs
8. PILmassCalcTests.cs, MSQlib1/src/massspec/PILmassCalcTests.cs
9. PILmassSpecConstants.cs, MSQlib1/src/massspec/PILmassSpecConstants.cs
10. PILmolecule.cs, MSQlib1/src/massspec/PILmolecule.cs
11. PILmoleculeTests.cs, MSQlib1/src/massspec/PILmoleculeTests.cs
12. PILpeptide.cs, MSQlib1/src/massspec/PILpeptide.cs
13. PILpeptideTests.cs, MSQlib1/src/massspec/PILpeptideTests.cs
14. PILperiodicTable.cs, MSQlib1/src/massspec/PILperiodicTable.cs
15. quantitationModesMoreGeneral.cs, MSQlib1/src/massspec/quantitationModesMoreGeneral.cs
16. PILinOut.cs, MSQlib1/src/utility/PILinOut.cs
17. PILstatistics2.cs, MSQlib1/src/utility/PILstatistics2.cs
18. PILstatistics2Tests.cs, MSQlib1/src/utility/PILstatistics2Tests.cs
19. COPYING.TXT, MSQuant/msquant/COPYING.TXT
20. README.txt, MSQuant/msquant/README.txt
21. mpnotes.txt, MSQuant/msquant/Documents/mpnotes.txt
22. MSCL.txt, MSQuant/msquant/Documents/MSCL.txt
23. peptidesForQuantitationFormat.txt, MSQuant/msquant/Documents/peptidesForQuantitationFormat.txt
24. srcTemplate.txt, MSQuant/msquant/Documents/srcTemplate.txt
25. MSQuant.xml, MSQuant/msquant/Documents/definitiveGuide/MSQuant.xml
26. AnalystSpectrumMarking.vb, MSQuant/msquant/src/GUI/AnalystSpectrumMarking.vb
27. AssemblyInfo.vb, MSQuant/msquant/src/GUI/AssemblyInfo.vb
28. automator.vb, MSQuant/msquant/src/GUI/automator.vb
29. ListViewCEBIExtended4.resx, MSQuant/msquant/src/GUI/ListViewCEBIExtended4.resx
30. ListViewCEBIExtended4.vb, MSQuant/msquant/src/GUI/ListViewCEBIExtended4.vb
31. listviewColumnMapper.vb, MSQuant/msquant/src/GUI/listviewColumnMapper.vb
32. ListViewColumnSorter.vb, MSQuant/msquant/src/GUI/ListViewColumnSorter.vb
33. overlaySpectrumMarking.vb, MSQuant/msquant/src/GUI/overlaySpectrumMarking.vb
34. retentionTimePlotting.vb, MSQuant/msquant/src/GUI/retentionTimePlotting.vb
35. SDUPspectrumMarking.vb, MSQuant/msquant/src/GUI/SDUPspectrumMarking.vb
36. ZedGraphSpectrumMarking.vb, MSQuant/msquant/src/GUI/ZedGraphSpectrumMarking.vb
37. formAbout.resx, MSQuant/msquant/src/GUI/forms/formAbout.resx
38. formAbout.vb, MSQuant/msquant/src/GUI/forms/formAbout.vb
39. frmAnalystSpectra.resx, MSQuant/msquant/src/GUI/forms/frmAnalystSpectra.resx
40. frmAnalystSpectra.vb, MSQuant/msquant/src/GUI/forms/frmAnalystSpectra.vb
41. frmAnalystSpectraWithLabelMarkers.vb, MSQuant/msquant/src/GUI/forms/frmAnalystSpectraWithLabelMarkers.vb
42. frmCorrelationSettings.resx, MSQuant/msquant/src/GUI/forms/frmCorrelationSettings.resx
43. frmCorrelationSettings.vb, MSQuant/msquant/src/GUI/forms/frmCorrelationSettings.vb
44. frmEndOfParse.Designer.vb, MSQuant/msquant/src/GUI/forms/frmEndOfParse.Designer.vb
45. frmEndOfParse.resx, MSQuant/msquant/src/GUI/forms/frmEndOfParse.resx
46. frmEndOfParse.vb, MSQuant/msquant/src/GUI/forms/frmEndOfParse.vb
47. frmEndOfParseAction.Designer.vb, MSQuant/msquant/src/GUI/forms/frmEndOfParseAction.Designer.vb
48. frmEndOfParseAction.vb, MSQuant/msquant/src/GUI/forms/frmEndOfParseAction.vb
49. frmExportFilters.resx, MSQuant/msquant/src/GUI/forms/frmExportFilters.resx
50. frmExportFilters.vb, MSQuant/msquant/src/GUI/forms/frmExportFilters.vb
51. frmFilesRelocation.Designer.vb, MSQuant/msquant/src/GUI/forms/frmFilesRelocation.Designer.vb
52. frmFilesRelocation.vb, MSQuant/msquant/src/GUI/forms/frmFilesRelocation.vb
53. frmFind.Designer.vb, MSQuant/msquant/src/GUI/forms/frmFind.Designer.vb
54. frmFind.resx, MSQuant/msquant/src/GUI/forms/frmFind.resx
55. frmFind.vb, MSQuant/msquant/src/GUI/forms/frmFind.vb
56. frmFinneganSpectra.resx, MSQuant/msquant/src/GUI/forms/frmFinneganSpectra.resx
57. frmFinneganSpectra.vb, MSQuant/msquant/src/GUI/forms/frmFinneganSpectra.vb
58. frmHelpMSQuant.resx, MSQuant/msquant/src/GUI/forms/frmHelpMSQuant.resx
59. frmHelpMSQuant.vb, MSQuant/msquant/src/GUI/forms/frmHelpMSQuant.vb
60. frmMainForm.resx, MSQuant/msquant/src/GUI/forms/frmMainForm.resx
61. frmMainForm.vb, MSQuant/msquant/src/GUI/forms/frmMainForm.vb
62. frmMascotParserOptions.resx, MSQuant/msquant/src/GUI/forms/frmMascotParserOptions.resx
63. frmMascotParserOptions.vb, MSQuant/msquant/src/GUI/forms/frmMascotParserOptions.vb
64. frmModificationFilter.resx, MSQuant/msquant/src/GUI/forms/frmModificationFilter.resx
65. frmModificationFilter.vb, MSQuant/msquant/src/GUI/forms/frmModificationFilter.vb
66. frmOptions.resx, MSQuant/msquant/src/GUI/forms/frmOptions.resx
67. frmOptions.vb, MSQuant/msquant/src/GUI/forms/frmOptions.vb
68. frmPeptideFilters.resx, MSQuant/msquant/src/GUI/forms/frmPeptideFilters.resx
69. frmPeptideFilters.vb, MSQuant/msquant/src/GUI/forms/frmPeptideFilters.vb
70. frmProteinList.resx, MSQuant/msquant/src/GUI/forms/frmProteinList.resx
71. frmProteinList.vb, MSQuant/msquant/src/GUI/forms/frmProteinList.vb
72. frmProteinValidation.resx, MSQuant/msquant/src/GUI/forms/frmProteinValidation.resx
73. frmProteinValidation.vb, MSQuant/msquant/src/GUI/forms/frmProteinValidation.vb
74. frmRecalibrationVisualisation.Designer.vb, MSQuant/msquant/src/GUI/forms/frmRecalibrationVisualisation.Designer.vb
75. frmRecalibrationVisualisation.vb, MSQuant/msquant/src/GUI/forms/frmRecalibrationVisualisation.vb
76. frmRecalibRealityCheck.Designer.vb, MSQuant/msquant/src/GUI/forms/frmRecalibRealityCheck.Designer.vb
77. frmRecalibRealityCheck.vb, MSQuant/msquant/src/GUI/forms/frmRecalibRealityCheck.vb
78. frmRetentionCorrSettings.Designer.vb, MSQuant/msquant/src/GUI/forms/frmRetentionCorrSettings.Designer.vb
79. frmRetentionCorrSettings.resx, MSQuant/msquant/src/GUI/forms/frmRetentionCorrSettings.resx
80. frmRetentionCorrSettings.vb, MSQuant/msquant/src/GUI/forms/frmRetentionCorrSettings.vb
81. frmRetrieveProteinsParameters.Designer.vb, MSQuant/msquant/src/GUI/forms/frmRetrieveProteinsParameters.Designer.vb
82. frmRetrieveProteinsParameters.vb, MSQuant/msquant/src/GUI/forms/frmRetrieveProteinsParameters.vb
83. frmSpectrumDisplay.resx, MSQuant/msquant/src/GUI/forms/frmSpectrumDisplay.resx
84. frmSpectrumDisplay.vb, MSQuant/msquant/src/GUI/forms/frmSpectrumDisplay.vb
85. frmSpectrumReductionParameters.resx, MSQuant/msquant/src/GUI/forms/frmSpectrumReductionParameters.resx
86. frmSpectrumReductionParameters.vb, MSQuant/msquant/src/GUI/forms/frmSpectrumReductionParameters.vb
87. frmToolBarProteinValidation.resx, MSQuant/msquant/src/GUI/forms/frmToolBarProteinValidation.resx
88. frmToolBarProteinValidation.vb, MSQuant/msquant/src/GUI/forms/frmToolBarProteinValidation.vb
89. frmZedGraphTryout.Designer.vb, MSQuant/msquant/src/GUI/forms/frmZedGraphTryout.Designer.vb
90. frmZedGraphTryout.vb, MSQuant/msquant/src/GUI/forms/frmZedGraphTryout.vb
91. frmZedSpectra.vb, MSQuant/msquant/src/GUI/forms/frmZedSpectra.vb
92. frmZoomRange.resx, MSQuant/msquant/src/GUI/forms/frmZoomRange.resx
93. frmZoomRange.vb, MSQuant/msquant/src/GUI/forms/frmZoomRange.vb
94. QuantOptions.resx, MSQuant/msquant/src/GUI/forms/QuantOptions.resx
95. QuantOptions.vb, MSQuant/msquant/src/GUI/forms/QuantOptions.vb
96. QuantWindow.resx, MSQuant/msquant/src/GUI/forms/QuantWindow.resx
97. QuantWindow.vb, MSQuant/msquant/src/GUI/forms/QuantWindow.vb
98. MascotResultParser.vb, MSQuant/msquant/src/main/MascotResultParser.vb
99. MSQapp.vb, MSQuant/msquant/src/main/MSQapp.vb
100. MSQdocDefs.vb, MSQuant/msquant/src/main/MSQdocDefs.vb
101. PILrest.vb, MSQuant/msquant/src/main/PILrest.vb
102. AnalystCOM.vb, MSQuant/msquant/src/main/massbase/AnalystCOM.vb
103. AnalystRawDataFileHandling.vb, MSQuant/msquant/src/main/massbase/AnalystRawDataFileHandling.vb
104. FindLCpeaks.vb, MSQuant/msquant/src/main/massbase/FindLCpeaks.vb
105. MicromassRawDataFileHandling.vb, MSQuant/msquant/src/main/massbase/MicromassRawDataFileHandling.vb
106. MS3scoring.vb, MSQuant/msquant/src/main/massbase/MS3scoring.vb
107. MSbaseData.vb, MSQuant/msquant/src/main/massbase/MSbaseData.vb
108. MultipleRawFilesHandling.vb, MSQuant/msquant/src/main/massbase/MultipleRawFilesHandling.vb
109. newFinneganRawDataFileHandling.vb, MSQuant/msquant/src/main/massbase/newFinneganRawDataFileHandling.vb
110. peptideFragments.vb, MSQuant/msquant/src/main/massbase/peptideFragments.vb
111. PILpeptide.vb, MSQuant/msquant/src/main/massbase/PILpeptide.vb
112. PILstatistics.vb, MSQuant/msquant/src/main/massbase/PILstatistics.vb
113. PTMscorer.vb, MSQuant/msquant/src/main/massbase/PTMscorer.vb
114. QS11analystCOM.vb, MSQuant/msquant/src/main/massbase/QS11analystCOM.vb
115. QS20analystCOM.vb, MSQuant/msquant/src/main/massbase/QS20analystCOM.vb
116. Quantifier.vb, MSQuant/msquant/src/main/massbase/Quantifier.vb
117. QuantitationModes.vb, MSQuant/msquant/src/main/massbase/QuantitationModes.vb
118. rawDataFileHandling.vb, MSQuant/msquant/src/main/massbase/rawDataFileHandling.vb
119. retentionTimeCorrelator.vb, MSQuant/msquant/src/main/massbase/retentionTimeCorrelator.vb
120. signal.vb, MSQuant/msquant/src/main/massbase/signal.vb
121. spectrumClassifier.vb, MSQuant/msquant/src/main/massbase/spectrumClassifier.vb
122. spectrumTree.vb, MSQuant/msquant/src/main/massbase/spectrumTree.vb
123. XICwindow.vb</