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@tivdnbos proposed to me the idea of propagating counts from taxa that are situated higher in the taxonomy tree to nodes that are situated lower, in order to increase identification confidence of taxa…
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sgibb updated
7 years ago
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Expanding the metaproteomics workflow
There are two limitations of the current metaproteomics workflow that limit its utility for the community,
(i) peptide sequence identification currently requires …
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In discussion with Lukas Kall, he pointed out to me that it appears mzid
appears to have limited support for capturing properties of peptide
identification (as opposed to PSMs). q-values, local …
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> It would be nice to have one panel for each identified protein/s, with the peptide identifications showing the sequence coverage, at least when the protein sequence information is included in the m…
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I'm doing a check to see if we can id tmt-tagged peptides. Particularly interested in PTM-modified peptides as these haven't been quantifiable in the past. If I get good identification rate then we ca…
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```
In discussion with Lukas Kall, he pointed out to me that it appears mzid
appears to have limited support for capturing properties of peptide
identification (as opposed to PSMs). q-values, local …
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**Is your feature request related to a problem? Please describe.**
With biological samples we want to avoid matching identifications between files, where we might genuinely not have the protein in on…
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https://pubs.acs.org/doi/full/10.1021/acs.jproteome.9b00555
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Hello,
I have my identifications in .mzIdentML format from a sulfo-SDA search on a single protein. Clicking on "map crosslinks" results in
Unique peptide pairs: 0 out of 0
Unique peptid…