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This would allow transitions from proteoforms identified with ET multimod sets that remove one PTM (e.g. dimethyl as {methyl, methyl} could have a transition -14 Da that removes a methyl).
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e.g. Alternative splice isoforms for TP53 Gene
UniProtKB/Swiss-Prot:
[P04637-1](https://www.uniprot.org/uniprot/P04637#P04637-1) [P04637-2](https://www.uniprot.org/uniprot/P04637#P04637-2) [P04637-3…
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Hi all,
I have a question about filtering MSPathFinder results after target/decoy search.
The PrSMs in the *lcTda.tsv-file are propably not filtered for a certain FDR. So I have to do it afterwards.…
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Hi all,
I have acquired profile data (MS1 and MS2) on an Thermo instrument.
I have now tested the following two MSPathFinder piplines:
1. Use the raw file as input for pbf generation via PbfGen and…
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Looking at the Parameters.html file:
- `Param$PathToProteinList` is not really clear. Is it a list of proteoforms or accessions that will be flagged throughout the pipeline? Or is it something else? …
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Testing the chemical formula and sequence of the residues should be sufficient to address this question and enable comparisons using different PTM databases.
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I want to open this up as a discussion outside of the coming pull request. I'm excited for the coming functionality, and I don't want to slow that down.
Making "proteoform hypothesis" a more formal…