Alexey Nesvizhskii

Our main TMT output Is from Tnt-integrator The table you are referring too are from philosopher TMT module. I cc Felipe to take a look and respond Get Outlook for...

I think we will release an update to Philosopher just removing that normalization for philosopher generated TMT quant (protein.tsv and combined_protein.tsv) files. It is not hard to add this normalization...

Hi Frank, We will turn off the normalization in philosopher labelquant command that generates TMT quantification shown in protein.tsv files. We will release an update soon. Labelquant just sums the...

Hi David, Thanks for the test Felipe, could you please take another look and see if you can replace the peptide sequence reported with the correct I/L (that matches the...

Hi Tobi, We generated the file by working closely with Devon from Olga Vitek lab (MSStats) He tested it extensively Can you email me directly so I can forward your...

Hi Tobi, yes you have to use the pre-release version. We changed the msstats files that philosopher writes so they are compatible with msstatsTMT. The publicly released version is not...