acore.io.pride module

acore.io.pride module#

Downlaod data from PRIDE database.

download_PRIDE_data(pxd_id, file_name, to='.', user='', password='', date_field='publicationDate') → dict[source]#

This function downloads a project file from the PRIDE repository. To see more of the pride API, have a look at https://www.ebi.ac.uk/pride/ws/archive/v3/webjars/swagger-ui/index.html or EBI’s commandline tool pridepy PRIDE-Archive/pridepy

Parameters:

  • pxd_id (str) – PRIDE project identifier (id. PXD013599).

  • file_name (str) – name of the file to dowload

  • to (str) – local directory where the file should be downloaded

  • user (str) – username to access biomedical database server if required.

  • password (str) – password to access biomedical database server if required.

  • date_field (str) – projects deposited in PRIDE are search based on date, either submissionData or publicationDate (default)