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QC metrics #168

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KlemensFroehlich opened this issue Jan 30, 2025 · 0 comments
Open

QC metrics #168

KlemensFroehlich opened this issue Jan 30, 2025 · 0 comments

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@KlemensFroehlich
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Dear Sage Developers,
We are currently looking into the possibility of integrating SAGE into our QC procedure.

What we currently do is using HEK runs (DIA) which we run through DIA-NN automatically.
DIA-NN has a nice little overview of most relevant metrics in a stats.tsv file.

If you are not familiar: It is a very short tsv output that lists the analyzed raw file, number of IDs (precs, prots), MS1 /MS2 signal aggregation, FWHM of peaks, mass accuracy and some other stuff.

We have extended this to also catch IM shifts in timsTOF data.

However, we now need to extend this pipeline to also be able to analyse DDA data.

Is it somehow possible to extract these info or some of them from SAGE? I can currently not find it in the outputs, also when I specify LFQ....
What would be especially helpful is chromatographic peak width, eg as FWHM readout.

SAGE would be an extremely cool option to do comprehensive QCs, as it is so light weight and fast.

Any input would be welcome!

Best, K

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