Supported Formats¶
Format Conversion Flow¶
Input Formats¶
| Software | PSM | Feature | Protein Group |
|---|---|---|---|
| MaxQuant | msms.txt | evidence.txt | proteinGroups.txt |
| DIA-NN | report.tsv | report.tsv | pg_matrix.tsv |
| FragPipe | psm.tsv | - | - |
| OpenMS | idXML | - | - |
| mzTab | PSM section | PEP section | PRT section |
Output Format¶
All conversions produce standardized parquet files following the QPX specification:
- PSM files:
*-psm.parquet- Peptide-spectrum matches - Feature files:
*-feature.parquet- Quantified peptide features - Protein Group files:
*-pg.parquet- Protein quantification - AE files:
*-absolute.parquet- Absolute expression (iBAQ) - DE files:
*-differential.parquet- Differential expression