Graphical representation for nucleotide skews in prokaryotic chromosomes.
Graphical representation for nucleotide skews in prokaryotic chromosomes.
draw.oriloc(ori, main = "Title", xlab = "Map position in Kb", ylab = "Cumulated combined skew in Kb", las = 1, las.right = 3, ta.mtext = "Cumul. T-A skew", ta.col = "pink", ta.lwd = 1, cg.mtext = "Cumul. C-G skew", cg.col = "lightblue", cg.lwd = 1, cds.mtext = "Cumul. CDS skew", cds.col = "lightgreen", cds.lwd = 1, sk.col = "black", sk.lwd = 2, add.grid = TRUE, ...)
ori |
A data frame obtained with the |
main |
The main title of the plot. |
xlab |
The x-axis title. |
ylab |
The y-axis title. |
las |
The style of axis labels for the bottom and left axes. |
las.right |
The style of axis labels for the right axis. |
ta.mtext |
The marginal legend for the TA skew. |
ta.col |
The color for the TA skew. |
ta.lwd |
The line width for the TA skew. |
cg.mtext |
The marginal legend for the CG skew. |
cg.col |
The color for the CG skew. |
cg.lwd |
The line width for the CG skew. |
cds.mtext |
The marginal legend for the CDS skew. |
cds.col |
The color for the CDS skew. |
cds.lwd |
The line width for the CDS skew. |
sk.col |
The color for the cumulated combined skew. |
sk.lwd |
The line width for the cumulated combined skew. |
add.grid |
Logical, if |
... |
Further arguments are passed to the function |
J.R. Lobry
citation("seqinr")
## Not run: # need internet connection # # Example with Chlamydia trachomatis complete genome # ori <- oriloc() draw.oriloc(ori) # # The same, using more options from function draw.oriloc() # draw.oriloc(ori, main = expression(italic(Chlamydia~~trachomatis)~~complete~~genome), ta.mtext = "TA skew", ta.col = "red", cg.mtext = "CG skew", cg.col = "blue", cds.mtext = "CDS skew", cds.col = "seagreen", add.grid = FALSE) ## End(Not run)
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