add_lines_track(gr, value, area = FALSE, baseline = "bottom", gp = gpar(), ...)
Arguments
gr
genomic regions, it can be a data frame or a GRanges object
value
numeric values associated with gr
area
whether draw polygon for the area under the line
baseline
baseline for drawing polygon
gp
graphic settings, should be specified by gpar.
...
other arguments passed to add_track
Value
No value is returned.
Author(s)
Zuguang Gu <z.gu@dkfz.de>
Examples
require(circlize)
bed = generateRandomBed(200)
gtrellis_layout(n_track = 2, track_ylim = rep(range(bed[[4]]), 2), nrow = 3, byrow = FALSE)
add_lines_track(bed, bed[[4]])
add_lines_track(bed, bed[[4]], area = TRUE, gp = gpar(fill = "grey", col = NA))
Results
R version 3.3.1 (2016-06-21) -- "Bug in Your Hair"
Copyright (C) 2016 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (64-bit)
R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.
R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.
Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.
> library(gtrellis)
Loading required package: grid
Loading required package: IRanges
Loading required package: BiocGenerics
Loading required package: parallel
Attaching package: 'BiocGenerics'
The following objects are masked from 'package:parallel':
clusterApply, clusterApplyLB, clusterCall, clusterEvalQ,
clusterExport, clusterMap, parApply, parCapply, parLapply,
parLapplyLB, parRapply, parSapply, parSapplyLB
The following objects are masked from 'package:stats':
IQR, mad, xtabs
The following objects are masked from 'package:base':
Filter, Find, Map, Position, Reduce, anyDuplicated, append,
as.data.frame, cbind, colnames, do.call, duplicated, eval, evalq,
get, grep, grepl, intersect, is.unsorted, lapply, lengths, mapply,
match, mget, order, paste, pmax, pmax.int, pmin, pmin.int, rank,
rbind, rownames, sapply, setdiff, sort, table, tapply, union,
unique, unsplit
Loading required package: S4Vectors
Loading required package: stats4
Attaching package: 'S4Vectors'
The following objects are masked from 'package:base':
colMeans, colSums, expand.grid, rowMeans, rowSums
Loading required package: GenomicRanges
Loading required package: GenomeInfoDb
> png(filename="/home/ddbj/snapshot/RGM3/R_BC/result/gtrellis/add_lines_track.rd_%03d_medium.png", width=480, height=480)
> ### Name: add_lines_track
> ### Title: add lines to a new or exsited track
> ### Aliases: add_lines_track
>
> ### ** Examples
>
> require(circlize)
Loading required package: circlize
> bed = generateRandomBed(200)
> gtrellis_layout(n_track = 2, track_ylim = rep(range(bed[[4]]), 2), nrow = 3, byrow = FALSE)
> add_lines_track(bed, bed[[4]])
> add_lines_track(bed, bed[[4]], area = TRUE, gp = gpar(fill = "grey", col = NA))
>
>
>
>
>
> dev.off()
null device
1
>