plotAssignmentX: Plot assignment lines

In jotsetung/GenomePlotR: Plotting data in genomic context

Description

Plot lines or polygons mapping between regions on the x axis.

Usage

plotAssignmentX(x.left.bottom, x.right.bottom, x.left.top, x.right.top, ybottom, ytop, col = rgb(0.9, 0.9, 0.9), border = "grey", assign.style = "polygon", vert.length = abs(diff(c(ybottom, ytop)))/10)

Arguments

x.left.bottom	The bottom left coordinates of the regions.
x.right.bottom	The bottom right coordinates of the regions.
x.left.top	The top left coordinates of the regions.
x.right.top	The top right coordinates of the regions.
ybottom	The position of the bottom regions on the y-axis.
ytop	The position of the upper/top regions on the y-axis.
col	The color (background color for assign.style=polygon)
border	The border color.
assign.style	The style of assignments. One of line (drawing lines) or polygon (plot assignment using polygons).
vert.length	A factor specifying how long the vertical part of the polygons should be.

Author(s)

Johannes Rainer

See Also

plotFeatures

Examples

b.l <- c( 1, 2, 3, 4 )
b.r <- c( 2, 3, 4, 5 )
t.l <- c( 2, 5, 6, 8 )
t.r <- c( 4, 5.5, 7, 10 )
plot( 3, 3, pch=NA, xlim=c( 0, 12 ), ylim=c( 0, 5 ) )
rect( xleft=b.l, xright=b.r, ybottom=0.5, ytop=1 )
rect( xleft=t.l, xright=t.r, ybottom=4, ytop=4.5 )
plotAssignmentX( x.left.b=b.l, x.right.b=b.r, x.left.t=t.l, x.right.t=t.r, ybottom=1, ytop=4, assign.style="line" )
plotAssignmentX( x.left.b=b.l, x.right.b=b.r, x.left.t=t.l, x.right.t=t.r, ybottom=1, ytop=4 )

plotAssignmentX( x.left.b=b.l, x.right.b=b.r, x.left.t=t.l, x.right.t=t.r, ybottom=1, ytop=4, col=c( "lightgrey", "green", "red", "lightgrey" ) )

jotsetung/GenomePlotR documentation built on May 19, 2019, 9:41 p.m.