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Hello,
when running FragPipe in headless mode (analyzing a TMT experiment), I get weird TMT channel names. I put an example here: https://oc.embl.de/index.php/s/9iEiAtMw6j0hSMK
In the annotatio…
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First, thank you all for making fragpipe available to the community.
Since we rely on batch systems on our HPC clusters, it is hard for our users
to every time run fragpipe interactively by running…
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Hello, I wanted to ask further clarification on using multiple cores to search MSFragger. We have servers and clusters that are very RAM heavy and I am trying to speed up the MSFragger search. In my l…
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### Abstract
Mass spectrometry (MS)-based single-cell proteomics (SCP) is an emerging field that requires a dedicated computational environment. `QFeatures` along with its extension `scp` allow for s…
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-Just trying to use the standard Fragpipe tutorial steps to generate a spectral library from DDA files. I get most of it done I believe but the log has an odd trace at the end I'd like to know if it's…
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I am trying to run open-workflow on a timsTOFpro data but it is failing with "could not find mzData" message? I have loaded the output folder at https://drive.google.com/drive/folders/1U_n-hxpWwUq7EDj…
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## Update 2021-12-06
To join the nf-core community, please visit https://nf-co.re/join
The most important step is to sign up to the nf-core Slack, which is the hub of the community.
Once ther…
ewels updated
2 years ago
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Before we start updating DRAO, we need to update the member ontologies and ensure there are no resulting conflicts. This ticket covers that update.
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Hello MSFragger team,
I try to use MSFragger (through FragPipe) to search phosphorylation data from Bruker’s TimsTOF pro. However, all intensity values for proteins and peptides are 0 in the search…
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Potentially very useful. Not sure why we don't have it yet... Maybe too many? Probably make sense to activate once we have a proper UI for the filters.