Issue in exporting normalization file without getting the protein name

[devenderarora]

Hello Developer, I am trying to work with the shiny app proteiNorm and it works fine for me but the issue I have encountered during exporting of normalization file is that there is no protein name instead 1, 2, 3,.. I am interested in looking for specific proteins distribution as well after the normalization step. I am saving the file like presented in the screen shot in the txt file.

I am getting the id column like:

Can you fix or recommend how we can do the same.

Regards, Devender

[ByrumLab]

The ID's are in the same order as the original input file and can be replaced. We ran into strange id formats from maxQuant and so they were replaced with numbers for the R dataframe to work.

This tool is now incorporated into the newly published "proteoDA" R package. You might try that version until we can update the proteiNorm code here.

Hope this helps.

[devenderarora]

Thanks for the response but when I looked into the proteinGroups.txt file we have 4417 proteins but after normalization I was looking at the normalization file and the total number of proteins are 3412. Thanks for sharing proteoDA as well. We will try to explore the data with proteoDA as well.

Regards, Devender

[ByrumLab]

Oh yeah, due to the filtering parameters selected. Please use the one in proteoDA until I can update this one. Thanks for pointing it out. We had this fixed at one point.