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## Query params
As before, everything that accepts a query will follow the same schema. Here is a declaration of all the schemas.
New bits are maked `NEW`, and the old bits are kept for context…
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[log_2021-03-19_18-06-28.txt](https://github.com/Nesvilab/FragPipe/files/6177735/log_2021-03-19_18-06-28.txt)
Dear Fragpipe developer
I am using Fragpipe to analyze DDA data generated on QE-HFX. I…
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I am using MSFragger 3.1.1, Philopher 3.4.13, and FragPipe 14.0 in Windows and doing an open search with PeptideProphet, ProteinProphet, PTM-Shepherd, and SpectraST library generation enabled.
Eve…
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Hello,
I am new to fragpipe, having been recommended by a colleague as helpful to perform a glyco search. My computer has 8Gb RAM and the fasta file is only 952 proteins (from NCBI). I get the erro…
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Meeting Jan 29th 2021 at 2pm UK time at https://ucl.zoom.us/j/92800004715. This page follows on from #52.
Recording is [here](https://youtu.be/kcfHwfKGJso).
On the call: @mattodd @drc007 @danakl…
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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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running philosopher pipeline
[philosopher.yml and comet.params.zip](https://github.com/Nesvilab/philosopher/files/4320429/philosopher.yml.and.comet.params.zip)
![image](https://user-images.git…
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Hi MSFragger team,
I am running MSFragger open search using MSFragger-2.2 and philosopher build 20190319. I am getting this message in the fragger run: "Not enough data to perform mass calibration,…
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Project: PXD012431
Search start: 09/10/2020, 02:09:58 PM
- Input file: P2_ANT_3.mzML
- Load spectra: 3288
- Search progress: 38%
99%
/opt/conda/conda-bld/openms-meta_15989106…
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Hi there,
Could you please help me with two errors (below) about Peptide Shaker? Thank you very much!
Lichun
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