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Submitted by wernber on 2013-06-20 16:24:13
Implementation of an Adapter/Wrapper for the database search engine MS-GF Plus
The MS-GF Plus search engine is a very powerful search engine (and is the s…
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When the general case for an mzIdentML element is to use the same value over
and over for an attribute, e.g. searchDatabase_ref, spectraData_ref,
massTable_ref, we should add a "default" version…
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if I get it right, for Modifications as search parameters
()mzIdentML cannot differentiate between peptide or protein
terminus.
In the CV there are "modification specificity C-term" and "modifi…
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> What steps will reproduce the problem?
trying to perform a search in OMSSA using default parameters, multiple .mgf
files exported from Progenesis LC-MS
> What is the expected output? What do y…
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Eric posted the following comment on the list:
At the risk of reopening old wounds and causing screams of rage, this may
be the last good opportunity to settle on a better name. When I mention
An…
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Hi
I try to add a .mzid file to my MSexp object but when I look at fData I only see NA's. There are for sure identification in the file (it's 50 mb and when I open it in an editor I see lots of entri…
adder updated
9 years ago
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When working with big mzid files, it's a pain to load and parse them in
Proteosuite. I propose we integrate the ProteoIDViewer to be initialised only
when a user select an option (e.g. right-cli…
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PRIDE Inspector is unable to open or process a peak file which has a byte order mark (BOM) set in the file. This means the peak file cannot be visualised on its own, or added as a related spectra file…
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Hello,
I came across your Java source while looking for a quick Uniprot regex. If
regexes aren't handled drastically differently in Java (I'm using R), then I
think your Uniprot regex in Protei…
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What steps will reproduce the problem?
1. java -cp mzTabCLI.jar uk.ac.ebi.pride.jmztab.MZTabCommandLine -convert
inFile=/some/absolute/path/input.mzid format=MZIDENTML -outFile
/some/absolute/pa…