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In the `tutorial.ipynb` workflow, a file is loaded at `data/test_files/ptm_file.csv` which contains a set of sites and known PTMs associated with that site (e.g. `p`, `ub`, `m` etc.)
There is also…
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[Bug_report.zip](https://github.com/Nesvilab/FragPipe/files/15340222/Bug_report.zip)
Greetings Fragpipe team,
I am currently using Fragpipe to reanalyses data to uncover previously undetected PT…
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貼吧活動:(請查閱 [SARS-CoV-2 Timeline by 2020.02.21](https://github.com/agorahub/_meta/blob/agoran/theagora/sari/Memorandum_2020-02-21_SARS-CoV-2-Timeline_Nathan.pdf?raw=true), by Nathan :cloud: )
- Colla…
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Hi,
I'm using PTM-SEA to determine pathway enrichment from phospho-proteomics data. When I run my data I only get output results (plots and gct files) for 11 signatures, while when running the ex…
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Hi all,
I am trying to use some .d files from a TIMS-TOF MS and analyze them with fragpipe. Targets are non-labbeled. I wou;d like to ask you what of the workflow you propose to me, to optimize my r…
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I have done the PTM analysis on the open search results using MSfragger. I am struggling to make sense of the results. Could you help in making sense of the Enrichment columns? The relationship betwee…
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Greetings,
I would like to thank you for providing this amazing Open-Source tool. Currently, I am performing Open-Search across multiple .RAW file. I would like to incorporate the identified mass-s…
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Hello,
I've recently been introduced to LC-MS in my master thesis project. My supervisor is very enthusiastic about Fragpipe and recommended me to use it - although he is also relatively new to it.…
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My GCT file is looks like this:
#1.2 | | | | | | |
-- | -- | -- | -- | -- | -- | -- | --
15039 | 50 | | | | | |
id | T_P29 | T_P47 | T_P31 | T_P46 | T_P23 | T_P09 | T_P…
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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.