.download

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

Contaminant databases

proteopy.download.contaminants

Download contaminant FASTA files from putative sources.

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.