Need in formatting data for circos plot

Hm,

Maybe if you change

C(-7, 7)

Error in C(-7, 7) : object not interpretable as a factor

to

c(-7, 7)

[1] -7  7

Cheers
Petr


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-----Original Message-----
From: R-help <r-help-bounces at r-project.org> On Behalf Of pooja sinha
Sent: Tuesday, October 5, 2021 2:20 PM
To: r-help mailing list <r-help at r-project.org>
Subject: [R] Need in formatting data for circos plot

Hi All,

I have gene expression data with differential fold change value and the

file

looks like as below:
Chrom start_pos end_pos value
14 20482867 20496901 2.713009346
4 123712710 123718202 -2.20797815
13 80883384 80896042 1.646405782
16 48842551 48844461 -1.636002557
17 28399094 28517527 1.033066311
9 31846044 31913462 -1.738549101
1 45311538 45349706 -1.360867536
I wrote a code in R but it is giving error so I need help in trouble
shooting:
library(circlize)
library(gtools)
library(dplyr)
circos.initializeWithIdeogram(species = "mm10")
circos.par("track.height"=0.20)

circos.genomicTrackPlotRegion(data = db_tr,ylim = C(-7, 7),

numeric.column

= 4,
                              panel.fun = function(region,value,...) {
                                cond <- value[,1] < 0.0
                                circos.genomicPoints(region[cond,],
value[cond,], pch = ".", cex = 0.1,
                                                     col = "khaki4")
                                circos.genomicPoints(region[!cond,],
value[!cond,], pch = ".", cex = 0.1,
                                                     col = "indianred")
                              })
Error is : Error in C(-7, 7) : object not interpretable as a factor

Please help as I am new to circos plot and tried a lot. The file is also

attached

here.

Thanks,
Puja