Dear all,

please could someone share if there is ANY RULE for making CIRCULAR PLOTS in GGBIO of ONLY CHROMOSOMAL SEGMENTS function of SEQLENGTHS :

for instance, let's consider the following GRanges object that contains the coordinates for 2 genes:

x <- GRanges(seqnames = "chr21", ranges = IRanges(c(43766466,43782390), c(43771208,43786644)), strand ="*", gene = c("TFF1","TFF2"), score = c(0,10))

size_interval <- max(end(x))-min(start(x))

seqlengths(x) <- size_interval

ggplot() + layout_circle(x, geom = "bar", fill = "red", radius = 120, trackWidth = 3, aes(y=score))

ggbio() + circle(x, geom = "bar", fill = "red", radius = 120, trackWidth = 3, aes(y=score))

How could I make the plot in such a way that is easy to visualize (it is on chr21 that has a length of approx 48 megabases, but we do not want to plot the entire chromosome .. ) thank you very much !

oh, well, if I may share a solution from Tengfei :

library(ggbio)

library(GenomicRanges)

x <- GRanges(seqnames = "chr21", ranges =

                 IRanges(c(43766466,43782390), c(43771208,43786644)), strand ="*", gene

             = c("TFF1","TFF2"), score = c(0,10))

x <- shift(x, min(start(x)) * -1 + 1e4)

size_interval <- max(end(x)) + 1e4

seqlengths(x) <- size_interval

ggbio() + circle(x, geom = "ideo") + circle(x, geom = "bar", aes(y = score),

                        fill = "red", color = "red")