Nair, Murlidharan T
mnair at iusb.edu
Wed Jul 26 18:23:15 CEST 2006
Let me clarify with a simpler example what I want to accomplish
alternative="less") out.data.mat <- with(Dcirec,data.frame(estimate,
conf.int, p.value.raw = c(p.value.raw), p.value.bon, p.value.adj))
I want to generate the same type of plot using out.data.mat that I get
How do I specify the plot method how the data in out.data.mat is to be
I am interested in doing this because, I am running about 1500 different
comparisons, which creates 1500 different objects. I need to analyze
them and combine significant ones into one plot.
From: Greg Snow [mailto:Greg.Snow at intermountainmail.org]
Sent: Tuesday, July 25, 2006 12:12 PM
To: Nair, Murlidharan T
Subject: RE: [R] Multcomp
> str( fungus.cirec )
Suggests that fungus.cirec$conf.int contains the confidence intervals,
you can manually plot the subset that you are intereseted in (and label
them whatever you want)
Gregory (Greg) L. Snow Ph.D.
Statistical Data Center
greg.snow at intermountainmail.org
From: r-help-bounces at stat.math.ethz.ch
[mailto:r-help-bounces at stat.math.ethz.ch] On Behalf Of Nair, Murlidharan
Sent: Saturday, July 22, 2006 11:00 AM
To: R-help at stat.math.ethz.ch
Subject: [R] Multcomp
Here it is again, hope this is more clear
I am using the following data (only a small subset is given):
I am using the multcomp package to do multiple comparisons as follows
library(multcomp) # loads the package
fungus<-read.table("fungi.txt", Header=T) # Reads the data from file
saved as fungi.txt
data=fungus,conf.level=0.95,type =c("Tukey")) # Computes cimultaneous
intervals using Tukey's method
plot(fungus.cirec) # plots the data
The plot function plots all the comparisons, I want to plot only part of
the data since it clutters the graph.
How do I plot only part of the data ?
How do I tell it to mark the significant comparisons?
How do I get rid of the field names in the plot? For eg. The plot labels
are HabitatBirch-HabitatOak, I want it to be labeled as Birch-Oak.
Hope I have posted it according to the guidelines, let me know
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