FragPipe
FragPipe copied to clipboard
Nesvilab
A cross-platform Graphical User Interface (GUI) for running MSFragger and Philosopher - powered pipeline for comprehensive analysis of shotgun proteomics data
When I start with ten mzml files,FragPipe can finish work.But when I start with total files(about fourty),it raise an error as follows. Process 'PhilosopherFilter' finished, exit code: 2 Process returned...
Dear Sir/Madam, I have being trying to carry out a search of 72 Ti02 phospho- enriched proteomics samples, I have previously tried with 4 and the search worked. I converted...
Hello, Can I use TMT-Interator to analysis .mxML files from timsTOF Pro of 4D-TMT？？
Hello, I encounter an error when opening the PDV-Viewer after performing a run in FragPipe. All the tasks were executed successfully it's just that there is an error with opening...
- Describe the issue or question: **To it may concern, I have an issue here when I was running LFQ-MBR for pulldown samples. Here is the error:** ERRO[13:36:47] Cannot read...
- Describe the issue or question: Using a large fasta database (with decoys) 8.4 GB fails. Running a smaller fasta database 1.7GB works fine (without slicing). - Upload your log...
- Describe the issue or question: I am using DIA_DIA-Umpire_SpecLib_Quant process to analyze the data, and I have only DIA and no DDA type in my data, and the following...
Hello I'm running Philosopher as part of Fragpipe. While running my workflow I get an error about a single mzML file: ``` PhilosopherFilter [Work dir: /home/dfermin/projects/glycoMS/fragPipeWork/out/F20230904_1026] /usr/local/a2idea/apps/fragpipe/tools/philosopher_v5.1.0_linux_amd64/philosopher filter --sequential --prot...
I would greatly appreciate if you merged this change, it would make maintaining my fork a lot easier. - The main thing it does is add some structure to the...
Dear FragPipe team, thanks a lot for creating and maintaining this wonderful tool for mass spectrometry! My problem is based on the open search. I am used to get unmodified...
