ppx: A Python interface to ProteomeXchange¶
ppx provides a simple means to access the ProteomeXchange  repository from Python. Using ProteomeXchange identifiers, the user can retrieve metadata associated with a project and download project files from the PRIDE Archive , MassIVE, and other partner repositories.
Our intent is that ppx would provide an efficient method to reuse proteomics data from ProteomeXchange, allowing easier access for those developing proteomics tools and analyses in Python.
ppx was developed and tested for Python 3.6+, and only requires
packages that are distributed as part of the Python Standard Library. The
release version of ppx can be installed with
pip install ppx
For R Users¶
|||Vizcaino J.A. et al. ProteomeXchange: globally co-ordinated proteomics data submission and dissemination, Nature Biotechnology 2014, 32, 223 – 226, doi:10.1038/nbt.2839.|
|||Vizcaíno JA, et al. 2016 update of the PRIDE database and related tools. Nucleic Acids Res. 2016, 44(D1): D447-D456. doi:10.1093/nar/gkv1145.|
|||Gatto L. rpx: R Interface to the ProteomeXchange Repository. 2018, R package version 1.16.0, https://github.com/lgatto/rpx.|