Question: ggbio package only works with h19 genome
0
gravatar for tiago211287
3.4 years ago by
tiago2112871.1k
USA
tiago2112871.1k wrote:

Someone here knows how to use the bioconductor ggbio package for plotting ideograms?

in the manual it says : 

"Ideogram provides functionality to construct ideogram, check the manual for more flexible methods. We build genome hg19, hg18, mm10, mm9 inside, so you don’t have download it on the fly. "

library(ggbio) p.ideo <- Ideogram(genome = "hg19")

p.ideo

But when I replace the h19 to mm10 in the code bellow, I get an error :

> p.ideo <- Ideogram(genome = "mm10")
use chr1 automatically
Error in ifelse(nrow(df.tri.p2), list(do.call(geom_arch_flip2, c(list(data = df.tri.p2),  : 
  erro na avaliação do argumento 'yes' na seleção do método para a função 'ifelse': 'Error in eval(expr, envir, enclos) : object 'y' not found

Can someone help me?

rna-seq ggplot2 ggbio R • 1.1k views
ADD COMMENTlink modified 3.4 years ago • written 3.4 years ago by tiago2112871.1k

I can not reproduce your error, it loads without problem for me.

maybe you can try rm(list=ls()) first?

ADD REPLYlink modified 3.4 years ago • written 3.4 years ago by Tky990

I'm getting the same error. Did you find a solution?

ADD REPLYlink written 2.9 years ago by biohack92150
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