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compomics / moFF

A modest Feature Finder (moFF) to extract MS1 intensities from Thermo raw file
Apache License 2.0
33 stars 11 forks source link

Standalone RAW Conversion in Linux #26

Closed antortjim closed 6 years ago

antortjim commented 6 years ago

Hi all!

My name is Antonio. I came across this tool forwarded by Marc Vaudel in this google group entry https://groups.google.com/forum/#!topic/peptide-shaker/Lqe7lYKLcHI (from Peptide Shaker). I think it's great. I am also surprised that you can support the analysis of RAW files as input within a Linux environment, as msconvert from ProteoWizard only supports that in Windows. I can see you make use of an executable called "txic_json.exe", which you call using mono https://github.com/compomics/moFF/blob/master/moff.py. Would it be possible to extract this conversion functionality as a script by itself, so that RAW files can be converted to mzML or mgf in Linux?

Thank you very much for your help in advance!

Best regards

Antonio

Maux82 commented 6 years ago

Hi Antonio,

Thanks for using moFF. I hope to release soon a new version with some intersting filtering option for the matched peaks.

Rearding your question, I will directly link you to our Thermo Raw parser a C# program that does the convertion Raw --> mgf. The convertion to mzML it should be available soon. For any question you can contact @nielshulstaert he is the developer of our Thermo Raw parser.

antortjim commented 6 years ago

Thanks for your answer! I'm sorry it took me a while to get back to you As you could see, I asked the developer of https://github.com/compomics/ThermoRawFileParser. It seems very promising :) Thanks for your time

Best Antonio