Entering edit mode
6.6 years ago
ZheFrench
▴
590
I am wondering what is the difference between this two reference package in R ? hg38 and GRCh38 should be same sequence assembly, right ? So what the point of creating this two reference package to access raw sequence.
Maybe the naming convention for the chromosomes?
UCSC usually prefix the chromosome with
chr
, NCBI doesn't.From the examples in the manuals:
BSgenome.Hsapiens.NCBI.GRCh38.pdf
genome[["1"]]
BSgenome.Hsapiens.UCSC.hg38.pdf
genome$chr1 # same as genome[["chr1"]]
fin swimmer
It is the same question as "the difference between UCSC and NCBI genomes". Why don't you load them and compare?