donwload hg38 canonical fa

Question

[BeeWork]

Hi all,

instead of running a command to remove alternative contigs sequence in hg38, is there anywhere I can download hg38.canonical.fa directly ?

Thanks

Answer 1

[GenoMax]

I assume you are looking for Primary sequence file present in Ensembl downloads.

----------------- PRIMARY ASSEMBLY

----------------- Primary assembly contains all toplevel sequence regions excluding haplotypes and patches. This file is best used for performing sequence similarity searches where patch and haplotype sequences would confuse analysis. If the primary assembly file is not present, that indicates that there are no haplotype/patch regions, and the 'toplevel' file is equivalent.