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HUPO-PSI / mzTab

mzTab Reporting MS-based Proteomics and Metabolomics Results
https://hupo-psi.github.io/mzTab
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Example with PEP #23

Open lgatto opened 8 years ago

lgatto commented 8 years ago

There seems to be no example containing a PEP section - would it be possible to add one?

ypriverol commented 8 years ago

@lgatto The only software producing mztab are the internal pipeline of PRIDE and OpenMS is working also on that. WE will have soon examples from OpenMS.

@timosachsenberg can you provide us an example of mztab with PEP section. Ready to be use.

timosachsenberg commented 7 years ago

I can generate an example mzTab with PEP section but not all fields are filled. @ypriverol I am currently trying to get data with protein groups which I can then convert to mzTab and send to you.

ypriverol commented 7 years ago

@timosachsenberg let me know. I will be ready to test!!

julianu commented 7 years ago

I assume this stands for peptides? Is this in the draft specification? If so, I could adjust my exporter to support this.

timosachsenberg commented 7 years ago

its for quantification files so might not be easily possible from pia?

julianu commented 7 years ago

Ah, ok, right, I remember. Ignore my comment, then.

ypriverol commented 7 years ago

@timosachsenberg whatever we handle fractionation it should be done for both I guess. I will take during the next month a review to the proteomics part of the mztab. The specification. I will do a PR to this repo with the new changes that we need to consider. For now @timosachsenberg we can also try to use the optional columns to handle some of these problems.

timosachsenberg commented 6 years ago

hi, I created an example file. It's still WIP but you can check it out at: https://raw.githubusercontent.com/timosachsenberg/OpenMS/feature/PQmzTab/t.mzTab