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Hello Bo,
I have stumbled over one observation, which makes it difficult the output interpretation. I run pepquery search with enabled "-um -hc FALSE" options. Then I check my output for certain pe…
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I have some peptides I identify from an MS/MS analysis. I would like to know just the hyperscore and MVH related to its sequence spectrum (which I already have)...is there way to get jut those scores …
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Hi all!
I have done a SearchGUI search of one .mgf file using a transcriptome database which results seem to be really good. However, I have a couple of questions regarding their validation:
1. As y…
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For the integration in Galaxy I have a question regarding the pqp datatype (for which I could not find much information).
For SQLite files galaxy identifies the type based on the set of tables in …
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Hi,
What does the output of the IDFilter mean ? It says:
Before filtering:
1 protein identification(s) with 7839 protein hit(s)
....
What is protein identification ? And what is it's differe…
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List of tools (ordered according to the tool panel) and associated tasks: ongoing
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Hi again,
when trying to load my SearchGUI results using:
```
java -Xmx112G -cp /mnt/lscratch/users/ohickl/proteomics/engines/PeptideShaker-2.0.0-beta/PeptideShaker-2.0.0-beta.jar eu.isas.peptide…
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Hi,
I would like to know if it is possible to export pivot report from peptide shaker GUI. Ideally, I wish to obtain a table with columns for the individual raw files where I can export to Perseus fo…
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Hi there!
Would it be possible to add a new feature to the list of exportable features in PeptideShaker? It would be great if the tool could export the **Spectral Index (SI)** of each validated spe…
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Hello,
Thank you for your support and help with the MSFragger user. I have completed several data search work, but there is still a problem that is described as follow：
“INFO[12:45:11] Executi…