Reference genomes within the Research Environment

Question

For my script, I am required to use a reference genome as an input. As we cannot download anything in the Research Environment, does Genomics England provide a local version of these reference genomes? And if so, where can I find these?

Answer

Yes, we indeed have local versions which can be found in /public_data_resources/.

For GRCh37 (V2):

/public_data_resources/reference/GRCh37/Homo_sapiens.GRCh37.75.dna.primary_assembly.fa

For GRCh38 (V4):

/public_data_resources/reference/GRCh38/GRCh38Decoy_no_alt.fa

For GRCh38 (Dragen):

/public_data_resources/reference/GRCh38DeAlt_HLA/GRCh38_full_analysis_set_plus_decoy_hla.fa

Last updated

This page was last updated on the 03 Nov 2021.