Provide a complete mapping of UCSC chromosome names to Ensembl

Bioconductor / GenomeInfoDb

Utilities for manipulating chromosome names, including modifying them to follow a particular naming style

https://bioconductor.org/packages/GenomeInfoDb

31 stars 13 forks source link

Provide a complete mapping of UCSC chromosome names to Ensembl #4

Open jorainer opened 6 years ago

jorainer commented 6 years ago

@ivanek opened an issue over at ensembldb (https://github.com/jotsetung/ensembldb/issues/88). ensembldb in general uses the genomeStyles function from GenomeInfoDb to map chromosome names. As of now we can only map the standard chromosome names from UCSC to Ensembl. It would also be nice to be able to map names for patched chromosomes etc. Eventually Robert's solution mentioned over at the ensembldb issue might be a starting point?

hpages commented 2 years ago

Hi @jorainer ,

See https://github.com/jorainer/ensembldb/issues/88#issuecomment-1212482235. Would that work for you?