This is mgcv 1.8-40. For overview type 'help("mgcv-package")

[ofleitas]

Hello
I am trying to run IceR with the example data and appear work well. However , in certain point of the processing appears this message :

This is mgcv 1.8-40. For overview type 'help("mgcv-package")'. and the processing seem to stall at this point.

Is this normal ?

Best regards

[mathiaskalxdorf]

Hi, this message is just an information from one of the used packages in the background. As you can otherwise see from the console, this message shows-up after IceR finished its job. R is still running but waiting for your input on the Shiny app (if you would like to start another run or want to have a look at the QC plots of the current run).
Best,
Mathias

[ofleitas]

Hello

Thank you very much for the help. I was able to reproduce the analyses with the example data. So I tried to perform the analyses with a different data and IceR did the job without problem. But when I tried compare the results of Maxquant with IceR I get the following error

library(IceR)

IceR <- load_Requant_data()
[1] "Select Parameters.xlsx"
[1] "Selected path to IceR output: C:/Users/ofm83/Documents/anti-virulence/iron/cellular/IceR_results/"
[1] "Selected IceR output name: _IceR_analysis"
[1] "Selected path to MaxQuant output: C:/Users/ofm83/Documents/anti-virulence/iron/cellular/spectra/combined/txt/"
Error in stringr::str_split(data_protein$Gene_Name, ";", simplify = T)[, :
subscript out of bounds
IceR <- load_Requant_data()
[1] "Select Parameters.xlsx"
[1] "Selected path to IceR output: C:/Users/ofm83/Documents/anti-virulence/iron/cellular/IceR_results/"
[1] "Selected IceR output name: _IceR_analysis"
[1] "Selected path to MaxQuant output: C:/Users/ofm83/Documents/anti-virulence/iron/cellular/spectra/combined/txt/"
Error in stringr::str_split(data_protein$Gene_Name, ";", simplify = T)[, :
subscript out of bounds
MaxQ <- load_MaxQ_data()
[1] "Select a file in the MaxQ output folder"
[1] "Selected path to MaxQuant output: C:\Users\ofm83\Documents\anti-virulence\iron\cellular\spectra\combined\txt\"
Error in stringr::str_split(data_protein$Gene.names, ";", simplify = T)[, :
subscript out of bounds

Best regards