The quantms output¶
quantms is a nf-core workflow that allows to process and analyze mass spectrometry data. At the end of the workflow it provides multiple output files. Here this repo defines some outputs that are relevant for AI/ML models development. The relations between the file concepts and formats can be seen in this diagram:
Contents¶
- Introduction to quantms.io
- Project file
- Quantms files
- Sample table
- Differential expression format
- Absolute expression format
- Peptide table format
- Peptide quantification features
- PSM table format
- quantms.io tools
- Project converter tool
- DE converter tool
- AE converter tool
- Feature converter tool
- Psm converter tool
- DiaNN convert
- Inject some messages for DiaNN
- Compare psm.parquet
- Generate spectra message
- Generate gene message
- Map proteins accessions
- Compare two parquet files
- Generate report about files
- Register file
- Convert file to json
- Statistics
- Plots
The following links should be followed to get support and help with the quantms maintainers:
