I downloaded the new version of OptiLCMS R package (1.1.0) and when running the following code:
mSet <- PerformMSnImport(filesPath = c(list.files("D:/01-Research projects/01-SCI project/2024/10 /LCMSrawdata/PM20/NEG/upload/",
pattern = ".mzML",
full.names = T, recursive = T)),
targetFeatures = ft_dt,
acquisitionMode = "DDA")
The following error occurred:
Error in PerformMSnImport(filesPath = c(list.files("D:/01-Research projects/01-SCI project/2024/10 /LCMSlawdata/PM20/NEG/upload/"
There is no 'PerformSnImport' function available
Then I checked all the functions in the package and I am very sure that the'PerformSnImport' function is not included in the package.
ls("package:OptiLCMS")
[1] "CentroidCheck" "CentroidMSData" "ExecutePlan"
[4] "Export.Annotation" "Export.PeakSummary" "Export.PeakTable"
[7] "FormatPeakList" "GaussModel" "ImportRawMSData"
[10] "InitDataObjects" "InitializaPlan" "PerformDataInspect"
[13] "PerformDataTrimming" "PerformParamsOptimization" "PerformPeakAlignment"
[16] "PerformPeakAnnotation" "PerformPeakFiling" "PerformPeakPicking"
[19] "PerformPeakProfiling" "PerformROIExtraction" "plotBPIs"
[22] "plotMSfeature" "plotSingleTIC" "PlotSpectraBPIadj"
[25] "PlotSpectraInsensityStistics" "PlotSpectraPCA" "PlotSpectraRTadj"
[28] "plotTICs" "PlotXIC" "running.plan"
[31] "SetAnnotationParam" "SetGlobalParallel" "SetPeakParam"
[34] "SetPlotParam" "UpdateRawfiles" "updateRawSpectraPath"
I found that this function exists in the following path on GitHub: man/PerformMSnIntr.Rd, which confuses me. How should I call it?
I downloaded the new version of OptiLCMS R package (1.1.0) and when running the following code:
mSet <- PerformMSnImport(filesPath = c(list.files("D:/01-Research projects/01-SCI project/2024/10 /LCMSrawdata/PM20/NEG/upload/",
pattern = ".mzML",
full.names = T, recursive = T)),
targetFeatures = ft_dt,
acquisitionMode = "DDA")
The following error occurred:
Error in PerformMSnImport(filesPath = c(list.files("D:/01-Research projects/01-SCI project/2024/10 /LCMSlawdata/PM20/NEG/upload/"
There is no 'PerformSnImport' function available
Then I checked all the functions in the package and I am very sure that the'PerformSnImport' function is not included in the package.