X-Git-Url: https://git.donarmstrong.com/?a=blobdiff_plain;f=man%2Fimage.DNAbin.Rd;h=a0eaa137fbefa806e9d352c2c58d3793a3bf52dd;hb=a2fc961dffe9f9b7994ed880e68c03b2334dc341;hp=7ad62df27d756f51086ca694071d6fe80c38738c;hpb=8fa54a671f763f10f68bfe660b6a5949123d3d41;p=ape.git diff --git a/man/image.DNAbin.Rd b/man/image.DNAbin.Rd index 7ad62df..a0eaa13 100644 --- a/man/image.DNAbin.Rd +++ b/man/image.DNAbin.Rd @@ -31,7 +31,7 @@ \code{\link[graphics]{image.default}} (e.g., \code{cex.axis}).} } \details{ - The idea of this function is to allow fleixble plotting and colouring + The idea of this function is to allow flexible plotting and colouring of a nucleotide alignment. By default, the most common bases (a, g, c, t, and n) and alignment gap are plotted using a standard colour scheme. @@ -43,7 +43,8 @@ } \author{Emmanuel Paradis} \seealso{ - \code{\link{DNAbin}}, \code{\link{del.gaps}}, \code{\link{clustal}} + \code{\link{DNAbin}}, \code{\link{del.gaps}}, \code{\link{alex}}, + \code{\link{clustal}}, \code{\link[graphics]{grid}} } \examples{ data(woodmouse) @@ -57,6 +58,7 @@ for (x in c("a", "g", "c", "t")) par(mfcol = c(1, 1)) ### zoom on a portion of the data: image(woodmouse[11:15, 1:50], c("a", "n"), c("blue", "grey")) +grid(50, 5, col = "black") ### see the guanines on a black background: image(woodmouse, "g", "yellow", "black") }