Hi! 2019-02-27 22:51 -0500, Aimin Yan wrote: > I have a question about assigning color based on the value of a > matrix > > The following is my matrix. > > d > lateRT earlyRT NAD ciLAD > lateRT 1.000000000 0.0000000000 0.006224017 0.001260241 > earlyRT 0.000000000 1.0000000000 0.001425649 0.007418436 > NAD 0.006224017 0.0014256488 1.000000000 0.064653780 > ciLAD 0.001260241 0.0074184361 0.064653780 1.000000000 > LAD 0.006969928 0.0007096344 0.393556636 0.002483941 > LAD > lateRT 0.0069699285 > earlyRT 0.0007096344 > NAD 0.3935566356 > ciLAD 0.0024839407 > LAD 1.0000000000 > > I want to use the following function to get heatmap and dendrogram > > > heatmap.2(d,trace="none",margin=c(8, 10)) > > but it is hard to use color to make 0.001260241 and 0.0074184361 to > be > visualized differently. > > Does anyone know how to adjust color based on these values in this > matrix?
Have you tried to adapt the attribute "colorTable"? You have to store the heatmap in an object (say "hm") and the use "hm$colorTable". See the examples here: https://www.rdocumentation.org/packages/gplots/versions/3.0.1.1/topics/heatmap.2 Also take a look on the documentation. HTH, Kimmo ______________________________________________ R-help@r-project.org mailing list -- To UNSUBSCRIBE and more, see https://stat.ethz.ch/mailman/listinfo/r-help PLEASE do read the posting guide http://www.R-project.org/posting-guide.html and provide commented, minimal, self-contained, reproducible code.
