.download

The proteopy.download module provides functions to download external resources such as contaminant protein databases.

Contaminant databases

proteopy.download.contaminants

Download a contaminant FASTA file from a supported source.

The contaminants function downloads protein contaminant databases commonly used in proteomics quality control:

• Frankenfield 2022 (default): Universal contaminant library (381 proteins) from Frankenfield et al. – details

• GPM cRAP: Global Proteome Machine common Repository of Adventitious Proteins (116 proteins) – details

Contaminant databases (manual download guide, not in API)

• CCP cRAP: Cambridge Centre for Proteomics cRAP (125 proteins, requires camprotR R package) – details

• MaxQuant: Contaminant database from MaxQuant (246 proteins) – details

Datasets

proteopy.download.karayel_2020	Save Karayel 2020 erythropoiesis dataset to disk.
proteopy.download.williams_2018	Save Williams 2018 SWATH-MS mouse tissue dataset to disk.