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Hey Vadim,
First of all congrats with the 1.9 release - I already re-analyzed lots of older data given the improved performance with the new release.
I had a small question regarding the protein…
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I've been seeing new format for modifications from recent versions of MaxQuant that cause a failure of `artmsProtein2SiteConversion`. Instead of the short `K(ph)`, MaxQuant is now using `S(Phospho (S…
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Dear Vadim,
maybe this is one of the yet hidden features of DiaNN: As I have a more complex experimental setup sometimes that involves biological and technical replicates and perhaps also increasin…
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Here a file with all the USIs corresponding to the reanalysis performed using quantms and DIANN workflow.
[PXD019909.1-USI.txt.zip](https://github.com/HUPO-PSI/usi/files/14040631/PXD019909.1-USI.t…
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Hi,
How is the Q.Value in the report.tsv calculated?
I noticed across multiple experiments that the Q.Values have a strange distribution. For instance, I searched the "RD139_Narrow_UPS1_25fmol_inj…
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Hey there, I'd like to add proteus to bioconda. I have created the [PR](https://github.com/bioconda/bioconda-recipes/pull/40243) already in case someone wants to look over it :)
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Dear WebGestaltR team,
I am running your package and have been since quite some years with no issues. The package is used to enrich differentially regulated proteins coming from the candidates tabl…
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Hi Vadim,
I have a few questions about protein inference.
1. I can't find the protein inference setting saved to the log file, is it saved under a different name?
2. We noticed a phenomenon …
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Hi Vlad,
I ran DIA-NN with the following argument on linux with immunepeptidome mzML input. We aimed to profile individual 9-mer peptide which is generated in the 9mer.fa input fasta file. Since we…
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Update the following URL to point to the GitHub repository of
the package you wish to submit to _Bioconductor_
- Repository: https://github.com/Lu-Group-UKHD/SmartPhos
Confirm the following by …