Problem using the new reference CHM13

ivanek / Gviz

This is the Gviz development repository. Gviz plots data and annotation information along genomic coordinates.

https://bioconductor.org/packages/Gviz/

Artistic License 2.0

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Open sara77777777 opened 1 year ago

sara77777777 commented 1 year ago

I'm trying to use the reference chm13 to visualize the short arm of chromosome 14, but it gives me this error:

Error in `genome<-`(`*tmp*`, value = "hs1") : 
  Failed to set session genome to 'hs1'

This is my code:

library(Gviz)
ideoTrack <- IdeogramTrack(genome = "hs1", chromosome = "chr14")
plotTracks(ideoTrack, from = 1, to = 11400261)

Could you please help me?

ivanek commented 1 year ago

HI @sara77777777,

It is related to rtracklayer bug: https://github.com/lawremi/rtracklayer/issues/84 It needs to be fixed there.