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From the preprint, "MassIVE-KB contains a designated subset of 30,506,973 “high quality” PSMs, identified by applying a strict (∼0%) PSM-level FDR filter and then selecting at most 100 PSMs for each c…
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### Describe the new term or terms you would like to add.
We think there’s need for a new CV term that is a child of [MS:1002664 (“interaction score derived from cross-linking”)](https://www.ebi.ac.u…
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### Features
- [x] `Peptidoform`
- [x] Mass calculation
- [x] Atomic composition calculation
- [x] Implement `__eq__` method (based on proforma string) (#15)
- [x] Apply fixed m…
RalfG updated
2 years ago
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Hi,
We're analysing some bacterial proteome data between a mutant and wildtype strain on FragPipe v18 and we're having an issue with a protein being quantified in the mutant strain based on a singl…
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There are 28 terms that both have a `has_value_type` relationship AND have child terms.
```
MS:1000045: collision energy ['xsd:float']
MS:1002013: collision energy ramp start ['xsd:float'…
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I ran a MSFragger search via FragPipe and wanted to characterize the PTMs in the output.
I enabled oxidation (M) and N-term Ac as variable modifications and carbamylation (C) as fixed modification. …
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Hi Vadim,
I'm running DIA-NN in FragPipe. Library was DDA phospho. I see that it says PTM scoring is enabled by default for phospho, but I was hoping to look at the PTM.Q.Value column regardless. A…
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### Description of feature
@jpfeuffer @timosachsenberg @qinchunyuan the pmultiqc report currenlty has the following behavoir:
In the LFQ/TMT pipelines because the mzTab information is available…
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### What is the QC term's name?
_QC sample metrics_
### Briefly describe the QC term.
Hi there :wave: with a mini package of QC metrics and related terms request!
I thought it made best sense to …
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Hi,
when i try to use pyprophet, this error appear:
`root@61d6818b7369:/data/ftp.peptideatlas.org# pyprophet ipf --in=merged.osw
Info: Starting IPF (Inference of PeptidoForms).
Info: Reading precu…