I had a look at this, and hist did some very weird things for me in
rpy2, plotted a lot of numbers over the top of the histogram. I had
better luck with histogram from the package lattice.
I was wondering, do you want a histogram of the values in d that fall
between 200 and 2000? If so, you probably should subset the data first.
If you do want to just show the part of the histogram within a
particular range, I think something like this would work:
from rpy2 import robjects
from rpy2.robjects.lib import grid
from rpy2.robjects.packages import importr
# The R 'print' function
rprint = robjects.globalenv.get("print")
grdevices = importr('grDevices')
base = importr('base')
lattice = importr('lattice')
r = robjects.r
V1 = r.rnorm(1000,3700,2500)
# the full histogram
p = lattice.histogram(V1,breaks=50)
rprint(p)
# just the bit you want, ie zoom in on a section
p = lattice.histogram(V1,breaks=50,xlim=robjects.IntVector([200,7200]))
rprint(p)
________________________________
From: Matthew MacManes [mailto:[email protected]]
Sent: Thursday, 4 November 2010 2:37 AM
To: [email protected]
Subject: [Rpy] specify xlim for hist()
Hi All,
Can anybody tell me how I can set xlim for a histogram, the
catch is that the xlim I want does not cover the entire range of x
values...
The snippet of R code I am trying to recreate in rpy2:
<code>hist(V1,breaks=100, xlim=c(200,7200))</code>
With rpy2, I can do something like:
<code>graphics.hist(d, r_base.seq(200, 7200, 100), col =
"lightblue", main = "contig length", xlab = "length (bp)</code>
but I get the error:
some 'x' not counted; maybe 'breaks' do not span range of 'x'
and the plot is not created. i'm fine with some of my
observations not being counted, this is in fact what I am hoping for...
Of course, ive tried:
<code>graphics.hist(d, breaks = 100, xlim = c(200,2000),
col = "lightblue", main = "contig length", xlab = "length (bp)")</code>
but this returns the error:
TypeError: 'DataFrame' object is not callable
This seems like such a simple problem, but I cant seems to
figure it out.
Thanks, Matt
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