├── .gitignore ├── AUTHORS ├── CHANGELOG ├── CMakeLists.txt ├── DEPENDENCIES ├── Dockerfile ├── LICENSE ├── README.md ├── REPLACE_QT_LIBRARIES ├── _clang-format ├── assets ├── README ├── application.qrc.in ├── cssclean │ └── stylesheets.qss ├── images │ ├── DEA.png │ ├── checked-box.png │ ├── cluster.png │ ├── clusterBW.png │ ├── correlation.png │ ├── create-selection.png │ ├── delete.png │ ├── edit.png │ ├── export.png │ ├── export_genes.png │ ├── filesave.png │ ├── flip.png │ ├── histogram.png │ ├── histogram2.png │ ├── import-dataset.png │ ├── import.png │ ├── import_genes.png │ ├── lasso.png │ ├── lasso2.png │ ├── loadGenes.png │ ├── loadSpots.png │ ├── merge.png │ ├── nonvisible.png │ ├── open.png │ ├── pca.png │ ├── print.png │ ├── reg_search.png │ ├── rotateLeft.png │ ├── rotateRight.png │ ├── save.png │ ├── save_selection.png │ ├── scatter.png │ ├── select-all.png │ ├── select-color.png │ ├── selection.png │ ├── selection2.png │ ├── selection_dea.png │ ├── settings.png │ ├── settings2.png │ ├── show_genes.png │ ├── show_spots.png │ ├── st_icon.icns │ ├── st_icon.ico │ ├── st_icon.png │ ├── unchecked-box.png │ ├── unselect-all.png │ ├── visible.png │ ├── warning.png │ ├── zoom_in.png │ └── zoom_out.png └── stviewer.conf ├── cmake ├── CMakeLists.txt ├── FindR.cmake ├── README ├── mac │ ├── CMakeLists.txt │ ├── Info.plist.in │ └── qt.conf ├── options_cmake.h.in └── utils.cmake ├── data ├── HE_Rep6_MOB.jpg └── MOB_REP6.tsv ├── src ├── CMakeLists.txt ├── SettingsStyle.h ├── analysis │ ├── AnalysisClustering.cpp │ ├── AnalysisClustering.h │ ├── AnalysisCorrelation.cpp │ ├── AnalysisCorrelation.h │ ├── AnalysisDEA.cpp │ ├── AnalysisDEA.h │ ├── AnalysisPCA.cpp │ ├── AnalysisPCA.h │ ├── AnalysisPCA.ui │ ├── AnalysisQC.cpp │ ├── AnalysisQC.h │ ├── AnalysisScatter.cpp │ ├── AnalysisScatter.h │ ├── CMakeLists.txt │ ├── ChartView.cpp │ ├── ChartView.h │ ├── analysisClustering.ui │ ├── analysisCorrelation.ui │ ├── analysisDEA.ui │ ├── analysisQC.ui │ └── analysisScatter.ui ├── color │ ├── CMakeLists.txt │ ├── HeatMap.cpp │ └── HeatMap.h ├── config │ ├── CMakeLists.txt │ ├── Configuration.cpp │ ├── Configuration.h │ ├── SettingsFormatXML.cpp │ └── SettingsFormatXML.h ├── data │ ├── CMakeLists.txt │ ├── Dataset.cpp │ ├── Dataset.h │ ├── DatasetImporter.cpp │ ├── DatasetImporter.h │ ├── Gene.cpp │ ├── Gene.h │ ├── STData.cpp │ ├── STData.h │ ├── Spot.cpp │ ├── Spot.h │ ├── UserSelection.cpp │ ├── UserSelection.h │ └── datasetImporter.ui ├── dialogs │ ├── AboutDialog.cpp │ ├── AboutDialog.h │ ├── CMakeLists.txt │ ├── EditDatasetDialog.cpp │ ├── EditDatasetDialog.h │ ├── EditSelectionDialog.cpp │ ├── EditSelectionDialog.h │ ├── SelectionDialog.cpp │ ├── SelectionDialog.h │ ├── aboutdialog.ui │ ├── editDatasetDialog.ui │ ├── editSelectionDialog.ui │ └── selectionConsole.ui ├── main.cpp ├── mainWindow.cpp ├── mainWindow.h ├── math │ ├── CMakeLists.txt │ ├── Common.h │ └── RInterface.h ├── model │ ├── CMakeLists.txt │ ├── DatasetItemModel.cpp │ ├── DatasetItemModel.h │ ├── GeneItemModel.cpp │ ├── GeneItemModel.h │ ├── SpotItemModel.cpp │ ├── SpotItemModel.h │ ├── UserSelectionsItemModel.cpp │ └── UserSelectionsItemModel.h ├── test │ ├── CMakeLists.txt │ ├── controller │ │ ├── tst_widgets.cpp │ │ └── tst_widgets.h │ ├── math │ │ ├── tst_glheatmaptest.cpp │ │ └── tst_glheatmaptest.h │ ├── unit_main.cpp │ ├── utils │ │ ├── tst_mathextendedtest.cpp │ │ └── tst_mathextendedtest.h │ └── viewOpenGL │ │ ├── OpenGLTestWindow.cpp │ │ ├── OpenGLTestWindow.h │ │ ├── test_AssertOpenGL.cpp │ │ └── test_AssertOpenGL.h ├── viewPages │ ├── CMakeLists.txt │ ├── CellViewPage.cpp │ ├── CellViewPage.h │ ├── DatasetPage.cpp │ ├── DatasetPage.h │ ├── GenesWidget.cpp │ ├── GenesWidget.h │ ├── SelectionGenesWidget.cpp │ ├── SelectionGenesWidget.h │ ├── SelectionSpotsWidget.cpp │ ├── SelectionSpotsWidget.h │ ├── SettingsWidget.cpp │ ├── SettingsWidget.h │ ├── SettingsWidget.ui │ ├── SpotsWidget.cpp │ ├── SpotsWidget.h │ ├── UserSelectionsPage.cpp │ ├── UserSelectionsPage.h │ ├── cellviewPage.ui │ ├── datasetsPage.ui │ ├── genesSelectionWidget.ui │ ├── selectionsPage.ui │ └── spotsSelectionWidget.ui ├── viewRenderer │ ├── CMakeLists.txt │ ├── CellGLView.cpp │ ├── CellGLView.h │ ├── GeneRendererGL.cpp │ ├── GeneRendererGL.h │ ├── GraphicItemGL.cpp │ ├── GraphicItemGL.h │ ├── HeatMapLegendGL.cpp │ ├── HeatMapLegendGL.h │ ├── ImageTextureGL.cpp │ ├── ImageTextureGL.h │ └── SelectionEvent.h └── viewTables │ ├── CMakeLists.txt │ ├── DatasetsTableView.cpp │ ├── DatasetsTableView.h │ ├── GenesTableView.cpp │ ├── GenesTableView.h │ ├── SpotsTableView.cpp │ ├── SpotsTableView.h │ ├── UserSelectionTableView.cpp │ └── UserSelectionTableView.h └── ubuntu_dep_and_compile.sh /.gitignore: -------------------------------------------------------------------------------- 1 | local_configuration.cmake 2 | build 3 | .project 4 | -------------------------------------------------------------------------------- /AUTHORS: 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