Displaying 12 results from an estimated 12 matches for "bluered".
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2006 Dec 22
1
heatmap with levelplot?
Hi,
How do I anchor z=0 to the white color in a levelplot so that
the color changes from cyan to magenta precisely as
z changes from negative to positive? Also is it easy to change
color scheme, say to blue/red as it's more dramatic? Is there a
better function for showing heatmap with a color bar?
Thanks in advance for any help, I've played with image,
heatmap and levelplot a little and
2011 Jul 27
0
Inversions in hierarchical clustering were they shouldn't be
...Colv=FALSE, distfun = function(x) dist(x,method = ''maximum''),
hclustfun = function(x) hclust(x,method = ''centroid''),
xlab = NULL, ylab = NULL, key=TRUE,
keysize=1, trace="none", density.info=c("none"),
margins=c(6, 12), col=bluered
)
This gives a heatmap with inversions in the cluster tree, which is inherent to the centroid method. A solution to avoid inversions is to use the Euclidean or the city-block distance, and indeed if you change maximum to euclidean in the above example the inversions are gone.(for reference see cha...
2006 Jul 17
3
Correlation Mapping
On the cover of Zivot and Wang's Modeling Financial Time Series with S
Plus, there is a correlation plot that seems to indicate the strength
of correlation with color-coded squares, so that more highly
correlated stocks appear darker red. If anybody out there is familiar
with the book or understands what I am talking about, I am curious as
to whether or not there is a similar function in R
2010 Feb 10
2
color palette heatmap
Hi,
I'm kinda new of the R world.
I need to use the heatmap or heatmap.2 function to plot correlation values.
2 questions:
- how can I specify a color palette? (would like to have a transition from
blue(-1) to white(0) to red(1))
- how can I use heatmap.2 imposing a specific order (like hclust.order)?
I mean, I don't want heatmap.2 to re-cluster/re-order my data but just to
plot them
2008 Nov 17
1
HELP ON SCALING GENE EXPRESSION DATA TO -1,0,1
...ment condition without
being fixed to the -1, to 1 scale.
Below is how the code i used.
library(gplots)
zcz<- read.table("chitekete.csv", header = T, row.names=1, sep=",");
xcc <- cor(zcz);
pdf("SIGA.pdf", height=10,width=9)
heatmap.2(xcc, margins= c(9,9), col = bluered(64), trace=c("none"),
breaks=c(seq(-1,1,1/32)), symkey=TRUE, density.info="histogram",
cexRow=1)
I thank you all.
Paul
--
BEST
Paul Murima
2005 Oct 03
5
heatmap
Hi,
i created a graph with heatmap(sma) function:
heatmap(dataHeat(x))
and I wish to change the gradation of colors from blue to red, how could
i do?
Using "heatmap(dataHeat(x), col=c(2,4))" i will use only 2 colors
without gradation.
Ty so much
Andrea
2006 Oct 05
4
glm with nesting
I just had a manuscript returned with the biggest problem being the
analysis. Instead of using principal components in a regression I've
been asked to analyze a few variables separately. So that's what I'm
doing.
I pulled a feather from young birds and we quantified certain aspects of
the color of those feathers. Since I often have more than one sample
from a nest, I thought I
2018 Sep 14
1
Possible bug with chromatic adaptation in grDevices::convertColor
It appears that the chromatic adaptation feature of `grDevices::convertColor`is broken, and likely has been for many years.? While a little surprising, it is an obscure enough feature that there is some possibility this is actually broken, as opposed to user error on my part.? If it turns out to the latter, I apologize in advance for spamming this list.
Consider:
??? rgb.in <-
2004 Oct 20
0
heatmap.2 ordering & color key
...top of the heatmap
If I use either of these orders the ordering works:
order <- c(1,2,3,4,5,6,7,8,9,10,11,12,13,14,15,16,17,18,19,20,21,22,23,24)
order2 <- c(24,23,22,21,20,19,18,17,16,15,14,13,12,11,10,9,8,7,6,5,4,3,2,1)
using the command:
heatmap.2(tmatrix, clusteredmatrixasdendrogram, col=bluered600,
dendrogram="column", scale="none", trace="none", Rowv=order)
however If I start mixing the numbers up e.g:
order3 <- c(1,4,7,10,2,5,8,11,3,6,9,12,13,16,19,22,14,17,20,23,15,18,21,24)
or
order4 <- c(24,21,18,15,23,20,17,14,22,19,16,13,12,9,6,3,11,8,5,2,10,7,...
2011 Jul 24
0
setting distance matrix and clustering methods in heatmap.2
...width=10)
heatmap.2(mat,
dendrogram="row",
Rowv=TRUE,
Colv=NULL,
distfun = dist,
hclustfun = hclust,
xlab = "Lipid Species",
ylab = NULL,
colsep=c(1),
sepcolor="black",
key=TRUE,
keysize=1,
trace="none",
density.info=c("none"),
margins=c(8, 12),
col=bluered
)
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2012 Jul 30
1
Z score in gplots
Hi,
Can anyone tell me how to set Z-score according to my own requirement as
the below code is taking as per the file entries. Any help would
be appreciable.
library(gplots)
x=read.table("final.txt", header=TRUE)
mat=data.matrix(x)
heatmap.2(mat,
col=colorRampPalette(c("green","white","red"))(256),
#col=greenred(75),
Rowv=TRUE,
Colv=FALSE,
distfun = dist,
2011 Mar 27
4
When Upgrading Wine
So, version .16 has come out and I wouldn't mind upgrading. The thing is, I have to patch my Wine source code for a particular game. I guess I have to remove the Wine version I have now, patch the .16 and compile the source code? If there is another way, please let me know.
Though, my main question is if I uninstall Wine, will it take thing installed with it; I mean, does .wine still exist