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Transfer learning to refine predicted library #145

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snsipe opened this issue Feb 22, 2024 · 2 comments
Open

Transfer learning to refine predicted library #145

snsipe opened this issue Feb 22, 2024 · 2 comments

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@snsipe
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snsipe commented Feb 22, 2024

Hello,
I am learning to refine our predicted spectral library to better match various samples (various proteolytic peptides, novel modifications, etc.). I am starting with standard unmodified tryptic peptides to ensure I am using AlphPeptDeep correctly, but I have run into issues with the file uploads. I have tried importing various speclib_tsv libraries (initially with then without modifications) as well as diann reports but am running into the same errors. I did not locate any log output, but attached is the output from my Windows PowerShell
2024-02-22_log.txt

I suspect I am loading inappropriate/invalid files. Are there any example file formats that I can test with?

@jalew188
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Could you please check diann report file? "Modified.Sequence" must be in the header

@snsipe
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snsipe commented Feb 27, 2024

Yes, "Modified.Sequence" is one of the column headers for each of the reports I have tried.
Would you be able to provide an example report and raw file that I may try through the gui? Perhaps there are other setting that I am not considering, e.g. modificaitons.

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