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Importing
Importing steps are the first stage in the workflow of every run in PROTZilla. In these steps, the program is provided with all the necessary data sets required in the following steps.
Imports protein sequences from a FASTA file (*.fasta, *.fa, or *.faa). PROTZilla extracts the protein identifier and amino acid sequence for each entry.
Imports sample metadata from a table file and links it to the imported protein data.
| Sample | Group | Batch |
|---|---|---|
| AD01_C1_INSOLUBLE_01 | AD | C1 |
| AD01_C1_INSOLUBLE_02 | AD | C1 |
| AD02_C2_INSOLUBLE_01 | AD | C2 |
| CTR01_C1_INSOLUBLE_01 | CTR | C1 |
| CTR01_C2_INSOLUBLE_01 | CTR | C2 |
Renames metadata columns so they match the column names expected by PROTZilla, such as Sample, Group, or Batch. This is useful when the imported metadata file uses different column names.
Imports peptide-level data from a MaxQuant peptides.txt file. PROTZilla extracts peptide sequences, protein identifiers, sample-specific intensities, and PEP values for use in peptide-based analyses. For details about the file format, see the MaxQuant peptide table documentation.
Imports protein quantification data from a DIA-NN protein group matrix (*.pg_matrix.tsv). Protein identifiers can optionally be mapped to UniProt IDs. For details about the file format, see the DIA-NN documentation.
Imports protein quantification data from a MaxQuant proteinGroups.txt file. Users can select the desired intensity type and optionally filter proteins identified only by site or map protein identifiers to UniProt IDs. For details about the file format, see the MaxQuant documentation.