Files in chasemc/IDBacApp
Protein and small molecule analysis of bacteria by MALDI-TOF MS

.gitattributes
.gitignore
.travis.yml
CreateExecutable.R
DESCRIPTION
IDBac_App.Rproj
LICENSE
LICENSE.md
MALDI-Plate_Template/384_Spot_MALDI_Template.xltx
MALDIparameters/AutoXMethods/IDBac_Protein_AutoX.axe
MALDIparameters/AutoXMethods/IDBac_Small-Molecule_autoX.axe
MALDIparameters/flexAnalysisMethods/Protein_Calibrant-Calibration.FAMSMethod
MALDIparameters/flexAnalysisMethods/Protein_Unknown-Sample-Calibration.FAMSMethod
MALDIparameters/flexAnalysisMethods/SmallMolecule-Calibrant-Calibration.FAMSMethod
MALDIparameters/flexAnalysisMethods/SmallMolecule-Unknown-Sample-Calibration.FAMSMethod
MALDIparameters/flexControlMethods/IDBac_Protein.par
MALDIparameters/flexControlMethods/IDBac_SmallMolecule.par
NAMESPACE
NEWS.Rmd R/addStrainAttributesModal.r R/binnR.r R/chooseDir.r R/chooserInput.r R/collapseProteinReplicates.R R/colored_Dots.r R/convertToMZML.r R/copyToNewDatabase.r R/createPool.R R/dendrogramModifiers.r R/distanceMatrix.r R/findMSconvert.R R/hierMetaInputModule.R R/manipulateMetadata.R R/module_coloringDendLines.R R/module_dendrogramCreator.R R/module_dots.R
R/module_modDendrogramLabels.R
R/module_modDendrogramLines.R
R/msConversion.R R/msImportFunctions.R R/multidimensionalAnalysis.R R/mzXML_machineData_readHelpers.r R/networkViaBrushedDendrogram.R R/proteinPeaksToMatrix.r R/readBrukerAcqusFile.r R/searchNCBI.R R/smallMolDFtoNetwork.R R/spectraProcessingFunction.r R/sqlManipulators.r R/sqlTableArchitecture.r R/subtractMatrixBlank.R R/test_examples.R R/ui_proteinClustering.R R/ui_rawData.R R/ui_sqlUI.R R/utils.R README.md
ReadMe_Images/Acquire1.PNG
ReadMe_Images/Acquire10.png
ReadMe_Images/Acquire11.png
ReadMe_Images/Acquire12.png
ReadMe_Images/Acquire13.png
ReadMe_Images/Acquire2.PNG
ReadMe_Images/Acquire3.PNG
ReadMe_Images/Acquire4.PNG
ReadMe_Images/Acquire5.PNG
ReadMe_Images/Acquire6.PNG
ReadMe_Images/Acquire7.PNG
ReadMe_Images/Acquire8.PNG
ReadMe_Images/Acquire9.png
ReadMe_Images/ApplyingToMALDIPlate1.png
ReadMe_Images/ApplyingToMALDIPlate2.png
ReadMe_Images/ApplyingToMALDIPlate3.png
ReadMe_Images/GEPHItutorial/Slide51.PNG
ReadMe_Images/GEPHItutorial/Slide52.PNG
ReadMe_Images/GEPHItutorial/Slide53.PNG
ReadMe_Images/GEPHItutorial/Slide54.PNG
ReadMe_Images/GEPHItutorial/Slide55.PNG
ReadMe_Images/GEPHItutorial/Slide56.PNG
ReadMe_Images/MainImage.png
ReadMe_Images/Naming_Files.png
ReadMe_Images/Slide57.PNG
ResultsReport.Rmd inst/app/server.r inst/app/ui.r
inst/app/www/A.png
inst/app/www/GitHub.png
inst/app/www/IDBacLogo.png
inst/app/www/IDBac_Computer_SVG_300DPI.png
inst/app/www/Multi-MALDI-Plate.png
inst/app/www/PCA.gif
inst/app/www/Single-MALDI-Plate.png
inst/app/www/SmallAppIcon3.ico
inst/app/www/WorkingDirectory.png
inst/app/www/WorkingDirectory_ReAnalysis.png
inst/app/www/arrowRight.png
inst/app/www/big_bacPlate.jpg
inst/app/www/chooser-binding.js
inst/app/www/css.css
inst/app/www/dendrogram.png
inst/app/www/errors/hit1.gif
inst/app/www/errors/hit2.gif
inst/app/www/errors/hit3.gif
inst/app/www/placeholder.gif
inst/app/www/rotatingPCA.gif
inst/app/www/styles.css
inst/app/www/styles2.css
inst/app/www/window.PNG
inst/extdata/RawData/0_C1/1/1SLin/acqu
inst/extdata/RawData/0_C1/1/1SLin/acqus
inst/extdata/RawData/0_C1/1/1SLin/fid
inst/extdata/RawData/0_C1/1/1SLin/pdata/1/1r
inst/extdata/RawData/0_C1/1/1SLin/pdata/1/proc
inst/extdata/RawData/0_C1/1/1SLin/pdata/1/procs
inst/extdata/RawData/0_C1/1/1SLin/sptype
inst/extdata/mzml/1.mzML
inst/extdata/sql_example/test.sqlite
inst/extdata/temp_mz/143812303281.mzML
inst/extdata/temp_mz/143842cd6434.mzML
inst/extdata/temp_mz/14385ad923e1.mzML
inst/extdata/temp_mz/14386cbf66b9.mzML
man/beginWithMZ.Rd man/beginWithTXT.Rd man/binnR.Rd man/changeDendLinesColor.Rd man/changeDendLinesWidth.Rd man/changeDendPartColor.Rd man/changeDendPartSize.Rd man/choose_dir.Rd man/chooserInput.Rd man/collapseSmallMolReplicates.Rd man/colorBlindPalette.Rd man/colordendLabels.Rd man/colordendLabelsUI.Rd man/colordendLines.Rd man/colordendLinesServer.Rd man/colordendLinesServercolordendLinesUI.Rd man/colordendLinesUI.Rd man/colored_dots.Rd man/compress.Rd man/conversionsUI.Rd man/convertToMzml.Rd man/copyToNewDatabase.Rd man/createMZsha.Rd man/createMetaSQL.Rd man/createPool.Rd man/createSpectraSQL.Rd man/createXMLSQL.Rd man/decompress.Rd man/dendrogramCreator.Rd man/dendrogramCreatorUI.Rd man/distMatrix.Rd man/dot-grepAcquDoubleValue.Rd man/dot-grepAcquValue.Rd man/dot-sampleName.Rd man/findAcquisitionInfo.Rd man/findMSconvert.Rd man/findRawSHAandFile.Rd man/getAllStrain_IDsfromSQL.Rd man/getOS.Rd man/getSmallMolPeakData.Rd man/hashR.Rd man/insertMetadataColumns.Rd man/multipleMaldiPlates.Rd man/networkViaBrushedDendrogram.Rd man/oneMaldiPlate.Rd man/parseDelimitedMS.Rd man/pcaCalculation.Rd man/pcoaCalculation.Rd man/proteinPeaksToMatrix.Rd man/readAcquFile.Rd man/runDendDots.Rd man/sampMeta.Rd man/sampMetaOutput.Rd man/searchNCBI.Rd man/serial.Rd man/smallMolDFtoNetwork.Rd man/spectraProcessingFunction.Rd man/sqlTableArchitecture.Rd man/subtractMatrixBlank.Rd man/tsneCalculation.Rd man/ui_proteinClustering.Rd man/ui_sqlUI.Rd
chasemc/IDBacApp documentation built on Jan. 15, 2019, 9:12 a.m.