Or perhaps the documentation could be updated to clear up what works and what
doesn't. It seems pretty confusing to put options in the docs that do not work
as described.
-Alex
> On Apr 24, 2014, at 4:05 AM, Duncan Murdoch wrote:
>
>> On 23/04/2014, 9:02 PM, Al
xed in a future release!
-Alex
On Wed, Apr 23, 2014 at 5:34 PM, Duncan Murdoch wrote:
> On 23/04/2014, 7:51 PM, Alex Reynolds wrote:
>
>> I am making an rgl-based 3d plot. It works fine, except when I try to
>> remove axis value labels and tick marks with ax
I am making an rgl-based 3d plot. It works fine, except when I try to
remove axis value labels and tick marks with axes3d(labels=FALSE,
ticks=FALSE):
---
rgl.open()
offset <- 50
par3d(windowRect=c(offset, offset, 1280+offset, 1280+offset))
rm(offset)
rgl.clear()
rgl.viewpoi
I am creating a levelplot figure with the following code. This should be
repeatable code, which includes a link to the data I am working with.
---
pdfFn <- "foo.pdf"
df <-
read.table("http://dl.dropbox.com/u/31495717/stackoverflow.overlaps.list.txt";,
sep="\t", header=FA
I have the following data as input, from which I would like to make a lattice
levelplot:
-
x y level
1 m3134 m3134 1.000
2 m3134 m416B 0.4189057
3 m416B m3134 0.2696508
4 m3134 mA20 0.3322170
5 mA20 m3134 0.2454191
6 m3134mB 0.3176792
...
I am running into resource issues with calculating correlation scores with
cor.test(), on R 2.13.0:
R version 2.13.0 (2011-04-13) ...
Platform: x86_64-unknown-linux-gnu (64-bit)
In my test case, I read in a pair of ~150M vectors from text files using the
pipe() and scan() functions, which p
Perfect, thanks!
On Nov 7, 2010, at 4:59 AM, baptiste auguie wrote:
> Hi,
>
> try this,
>
> xyplot(Time~Chromosome|factor(Elements),
> data = mtx[order(mtx$Chromosome), ], ... [snipped])
>
>
> HTH,
>
> baptiste
>
>
>
>
>
I have the following xyplot figure:
http://img577.imageshack.us/img577/686/filesizeresults1200.png
The data are organized in a matrix file as follows:
Type ElementsChromosome Time
bedGz 1200chr114.240
bedGz 1200chr27.949
bedGz 1200
On May 2, 2009, at 5:08 PM, David Winsemius wrote:
Not sure since you have not provided a reproducible example and not
really defined what "annotations" means.
By annotations, I mean that I want to draw an object (set of poiygon()
elements that make up a genomic sequence logo), anchored at
How would I set the "scales" property of a lattice levelplot, so that
I can add specific annotations at specific positions?
For example, I have a 200 x 1000 element levelplot. Along the y-axis
(along the 1000-element axis) I would like to add annotations on the
left side of the levelplot at
I have tried to use rect.hclust() to draw a rectangle around a set of
leaves, but am running into trouble.
The rect.hclust() is drawing two rects instead of one, and of the
wrong size:
scoreClusterObj <- hclust(scoreDistanceObj, method=clustMethod)
order <- scoreCluster
I'd like to stretch a plotted character vertically, to create a
"sequence logo".
Is there a parameter to allow stretching text() output vertically or
squeeze horizontally?
I know about Oliver Bembom's seqLogo library, but this generates a
sequence logo plot using a separate bitmap device. I
Is it possible to resize the labels in a dendrogram without applying
circles and triangles to edges?
I tried cex.labels:
plot(scoreDendogramObj, horiz=TRUE, axes=FALSE, cex.labels=0.8)
but that didn't have any effect.
Thanks,
Alex
__
R-help@r-pro
Many thanks to you and Peter Dalgaard for your advice. Instead of
notches on a classic box plot, I have elected to draw a more
"minimalized" box plot along the lines suggested by Tufte, and overlap a
custom significance region on this.
As a statistical question, if I log-transform my data, can
Is there a way to modify the choice of notch size [1] in R's boxplot
routine from outlining a 5% significance region, to say 1% or lower?
Thanks,
Alex
[1] McGill, Tukey, and Larsen. "Variations of Box Plots", The American
Statistician, Vol. 32, No. 1, 12-16.
_
ly (not the boxplot) or
shrinking the names text (I tried cex.names=0.7 but this didn't help).
Thanks for any advice, I apologize if these are stupid questions,
-Alex
--
Alex Reynolds
University of Washington Medical Genetics
2211 Elliot
Seattl
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