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Testing the platform with example genomes

If you'd like to test the platform, we recommend using the small HAPNEST dataset.

Synthetic HAPNEST data​

Synthetic genomes don't contain any private or sensitive information but are compatible with bioinformatics tools like our platform.

A copy of the small HAPNEST dataset is available to download from:

https://ftp.ebi.ac.uk/pub/databases/spot/intervene/

There are three files to download:

  • hapnest.pgen
  • hapnest.pvar
  • hapnest.psam

This triplet of files contains genotypes (.pgen), variants (.pvar), and sample data (.psam) in PLINK 2 format.

When you work with these files it's important to keep all of the files together.

Other genomes​

caution
  • Please do not upload sensitive data - like real sequenced genomes - to the platform
  • It's OK to upload publicly available and permissively licensed data, like 1000 Genomes
  • The platform and documentation is being actively developed and tested so things might go wrong when you submit jobs