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Validate mzIdentML against HUPO mzidentML and PRIDE validator, as well as ProteoWizard, IDConvert, Skyline, IDPicker about metamorpheus HOT 6 CLOSED

smith-chem-wisc avatar smith-chem-wisc commented on May 24, 2024 1
Validate mzIdentML against HUPO mzidentML and PRIDE validator, as well as ProteoWizard, IDConvert, Skyline, IDPicker

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Comments (6)

stefanks avatar stefanks commented on May 24, 2024

Or maybe mzTab is the format we should be focusing on?

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trishorts avatar trishorts commented on May 24, 2024

we could get some/all of this code from morpheus

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stefanks avatar stefanks commented on May 24, 2024

I would prefer to use class files generated from xsd, that are already included in mzLib. Less possibilities to mess up, and will automatically conform to specifications. https://github.com/smith-chem-wisc/mzLib/tree/master/mzIdentML

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trishorts avatar trishorts commented on May 24, 2024

check the result against the HUPO mzidentML and PRIDE validator tools:
https://github.com/HUPO-PSI/mzIdentML

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chambm avatar chambm commented on May 24, 2024

Somebody reported a ProteoWizard idconvert failure on some MetaMorpheus mzIdentML. It has spectra (SIIs and SIRs), but no peptide or protein information in it at all! Work in progress, I assume? :)

The file also reports version 1.0.0.0, but I see no release corresponding to that so I assume it's a dummy value.

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rmillikin avatar rmillikin commented on May 24, 2024

reorganized in #1125

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