The pyEGA3 download client is a python-based tool for viewing and downloading files from authorized EGA datasets.

Data is stored unencrypted on the user's Galaxy account. Confidential data from the EGA could be left unprotected when uploaded to a public Galaxy server. Make sure to read the EGA Data Access Agreement (DAA) before uploading any data to Galaxy from the EGA. If this applies to you, we recommend you follow the GalaxySensitiveData-ELIXIR-IS page for updates on encrypted data at rest.

If you have an EGA account, you can set your EGA credentials in the user preferences menu of Galaxy. Otherwise, default EGA credentials with access to an example dataset will be used.

pyEGA3 uses the EGA Data API and has several key features:

• Files are transferred over secure https connections and received unencrypted, so no need for decryption after download.
• Downloads resume from where they left off in the event that the connection is interrupted.
• pyEGA3 supports file segmenting and parallelized download of segments, improving overall performance.
• After download completes, file integrity is verified using checksums.
• pyEGA3 implements the GA4GH-compliant htsget protocol for download of genomic ranges for data files with accompanying index files.