-
```
Hi all,
Sean pointed out to me that the current mzid specifications appear to rule out
the coding of de novo approaches. When we made the transition from mzid 1.0 to
1.1, we made PeptideEvidenc…
-
```
> What steps will reproduce the problem?
We loaded 12 result files produced by Searchgui (MS-GF+) into PeptideShaker.
After about 2 hours of analysis, with PeptideShaker at more than 80% of the
…
-
```
Hi all,
Sean pointed out to me that the current mzid specifications appear to rule out
the coding of de novo approaches. When we made the transition from mzid 1.0 to
1.1, we made PeptideEvidenc…
-
Hello,
Thank you for your great work!
I have been using the software to analyze the DIA data. But I'm confused about the identifiactions of the two different wersions (DIA-NN(1.7.12) vs DIA-NN(1…
-
Searchgui input should be allowed only for compatible versions.
Or at least documented which versions are allowed.
-
Spectra inputs:
- [x] .mzML
- [x] .raw
- [x] .mgf
Database inputs:
- [x] .fasta
- [x] .fa
- [x] .xml
- [x] .xml.gz
- [ ] .vcf
- [x] .fasta.gz
- [ ] Spectral library (.xml?)
Search resu…
-
I noted something strange today after I was asked by a colleague to add a number of peptides column to her DiaNN pg matrix. I loaded the report.tsv in R, aggregated protein groups by modified sequence…
-
After running `proteinToGenome`, I'm observing a case where a peptide, arising from a gene with multiple isoforms, is found to have a mix of within exon and junction coordinates. Upon closer inspectio…
-
**Describe the bug**
When I run the example code:
```
if (is_mhcnuggets_installed()) {
peptides
-
I am evaluating the accuracy of Fragpipe.
Using Fragpipe 19.1 (MSFragger-3.7; IonQuant-1.8.10; philosopher_v4.8.0; Percolator 3.05), I run an LFQ analysis on publicly available data.
I used file…