Install pseudomsir

You can install pseudomsir from GitLab

if(!require(remotes)){
install.packages("remotes")
}
remotes::install_gitlab("jaspershen/pseudomsir")

or GitHub

remotes::install_github("deepPseudoMSI-project/pseudomsir")

Convert mass spectrometry data to pseudoMS image

Please convert your mass spectrometry raw data to mzXML or mzML format first using msconvert or R package massconverter.

Then use the convert_raw_data2pseudoms_image function from pseudomsir package to convert mzMXL or mzML format to images.

library(pseudomsir)

Then put the mzXML data in the demo_data folder.

convert_raw_data2pseudoms_image(file_name = "demo_data/QCP11.mzXML")

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## agg_png 
##       2

And then one image (png) with the same name of mzXML file will be put in the same folder.