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We need to add the decoy Sanger tool to the library. The tool is the following:
https://www.sanger.ac.uk/science/tools/decoypyrat
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# Describe the problem
* **I'm submitting a:**
- [x] problem running the software
- [ ] bug report
- [ ] feature request
- [ ] question
* **My MSFragger use case:**
- [x] _Closed_…
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Despite choosing the setting instrument = low_res the Q Exactive settings are used by MSGF+, see screenshot.
. This is currently not the case for PeptideIndexer, which does the actual mapping …
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make advanced:
- sonar
maybe rename:
-Scoring -> scoring
Applies to this tool but others as well : **how to handle the display of subsection parameters.**
Right now, I think they are complet…
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Hi,
An error occurs when I attempt to import data from SearchGUI to Peptide Shaker. The data fails to import. I've shown the bug report below.
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Full report;
"# ------------------------------------------------------------------
# PeptideShaker 1.16.3…
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for discussion:
-in TODO: add mzID
make advanced:
- separator
- replacement
- quoting
- no_ids (extend documentation to what file it applies)
- feature:minimal
- feature:add_metavalues
- id…
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Revisit and rework conversion rules or shex schema to bring them into alignment. Close when everything passes. Re-open individual tickets for future failures.
- [x] Implement re-usable software…
goodb updated
4 years ago
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# Describe the problem
I almost get equal numbers of 'real' (1509) and 'rev_' (1651) proteins in the final output file.
This seems to be traced back to the 'Mapped Proteins' column in the 'peptid…