ggbio circular plot y axis scale
0
0
Entering edit mode
@miss-agnieszka-aleksandra-golicz-6531
Last seen 10 months ago
Australia

Hello,

I am using ggbio to plot snp frequencies.

I have a following GRanges object (named lost):

GRanges object with 6 ranges and 2 metadata columns:
      seqnames             ranges strand |            id       freq
         <Rle>          <IRanges>  <Rle> |   <character>  <numeric>
  [1]        1 [      1,       1]      * |        ID_1.0 0.04444444
  [2]        1 [ 437649,  437649]      * |  ID_437649.87 0.08000000
  [3]        1 [ 875298,  875298]      * |  ID_875298.74 0.09333333
  [4]        1 [1312947, 1312947]      * | ID_1312947.61 0.01369863
  [5]        1 [1750596, 1750596]      * | ID_1750596.48 0.03703704
  [6]        1 [2188245, 2188245]      * | ID_2188245.35 0.05194805
  -------
  seqinfo: 9 sequences from an unspecified genome

And use code below to make a circular plot:

p <- ggbio()

p <- p + circle(lost, geom = "line", color = "steelblue", aes(y=freq), grid=TRUE, ylim=c(0,max(tMS$freq)))

p <- p + circle(chrs, geom = "ideo", fill = "gray70")

p <- p + circle(chrs, geom = "scale", size = 2)

p <- p + circle(chrs, geom = "text", aes(label = seqnames), vjust = -0.5, size = 3)

And end up with a nice plot ( http://jmp.sh/X89VERH ). However, I would like to add min and max y values to the plot (label grids?)

Agnieszka

 

 

 

ggbio • 1.8k views

Login before adding your answer.

Traffic: 615 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6