MetaMorpheus

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Issue with Peptide Assignment and Protein Grouping in Software v.1.0.2

6

I am encountering an issue with software v.1.0.2. It reports that 25 identified peptides were assigned to a protein, 4 of which are unique. I expected to see which peptides...

AmirWIS

XLMS search run failed: HELP

2

I am getting the following error "Runtime error, Run failed: Value cannot be null (Parameter 'source') Would you like to report this crash? I am running XLMS mode. I am...

bluemooninvestor

[WIP] Add support for timsTOF data to MetaMorpheus

1

This PR is downstream of a related mzLib PR. It adds support for searching timsTOF data in MM. Calibration/quant is not currently supported

Alexander-Sol

Can we incorporate similar outputs from all quantified protein groups into all quantified peptides results for filtering downstream? Such as peptide q-value, contaminant vs target peptide, mod information

CEBoos

non-specific search dictionary

1

user dmorgan reported issue during non-specific search of key already existing. https://github.com/smith-chem-wisc/MetaMorpheus/issues/2400 This PR adds cod the check the dictionary for existence of a key before adding.

trishorts

PR #2394 added functionality to eliminate decoy peptides that are identical to target peptides. However, this only works for single-protease searches. If there are multiple proteases, then it is possible...

Alexander-Sol

Github Actions 2: Run Tests

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GIthub action to run all tests TODO: Code Cov report

nbollis

crash running a non-specific search.

3

I ran an analysis that includes spectra averaging, GPTMD and search. The crash occurred during the search stage, giving a "key=10" error. see the attached file. Thanks! David. [results.txt](https://github.com/user-attachments/files/16676304/results.txt)

Dmorgen

Custom Glycan Library and Enzyme Cleavage Sites for O-Glycopeptide Searches in O-Pair

3

Hello, First of all, I would like to commend you on the excellent work you have done with O-Pair. It is an incredibly powerful tool for O-glycopeptide identification, and it...

MuZi-Y