hi all,
i have a file of the following format that i want to read into a matrix:
010101001110101
10101001010
01001010010
...
it has no headers or row names.
I tried to use read.table(), but it doesn't allow me to specify nothing as
the column separator (specifying sep='' means
Hi,
i was looking into the documentation for the rma() function in affy()
package, and was trying to figure out how exactly the background
normalization is done. I read all three papers cited in the rma()
documentation, but the most detailed explanation i could find was in Irizary
et al., 2003,
Hi,
I'm interested in building a Cox PH model for survival modeling, using 2
covariates (x1 and x2). x1 represents a 'baseline' covariate, whereas x2
represents a 'new' covariate, and my goal is to figure out where x2 adds
significant predictive information over x1.
Ideally, I could get a
does anyone know a statistical test implemented in R that can do a sign test
for difference of medians, except that can handle censored data?
Thanks!
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hi,
I'm looking to compare two area under ROC values for different classifiers
on the same data -- is there an r function to do this? Thanks!
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hi,
I'm looking for a package to compare two hazard ratios (and assign
statistical significance) obtained from two different predictive models. I
know of the hr.comp2 function from the survcomp package, but was wondering
if there's any other packages out there.
thanks!
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:
Message: 86
Date: Fri, 25 Feb 2011 00:11:59 -0500
From: Brian Tsai btsa...@gmail.com
To: r-help@r-project.org
Subject: [R] BFGS versus L-BFGS-B
Message-ID:
aanlktimszvkjbuhv-bbr1easpx9ootjxqcujgujr5...@mail.gmail.com
Content-Type: text/plain
Hi all,
I'm trying to figure
Hi all,
I'm trying to figure out the effective differences between BFGS and L-BFGS-B
are, besides the obvious that L-BFGS-B should be using a lot less memory,
and the user can provide box constraints.
1) Why would you ever want to use BFGS, if L-BFGS-B does the same thing but
use less memory?
Hi,
I am trying to do multinomial regression using the glmnet package, but the
following gives me an error (for no reason apparent to me):
library(glmnet)
cv.glmnet(x=matrix(c(1,2,3,4,5,6,1,2,3,4,5,6),
nrow=6),y=as.factor(c(1,2,1,2,3,3)),family='multinomial',alpha=0.5,
nfolds=2)
The error i get
Hi,
I was wondering if anyone has implemented a numerically stable function to
compute log(sum(exp(x))) ?
Thanks!
Brian
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Hi,
I'm having problems using the 'width' aesthetic attribute for the
geom_errorbarh. This is the same problem reported earlier here, but I'll
try to write the problem more clearly:
http://www.mail-archive.com/r-help@r-project.org/msg62371.html
The problem I'm having is that, the 'width'
Hi Ben,
Indeed this is what i wanted, thanks. height does make more sense, I guess
I was just reading the ggplot2 documentation directly, which still refers to
width.
Brian
On Sun, Dec 12, 2010 at 5:12 PM, Ben Bolker bbol...@gmail.com wrote:
Brian Tsai btsai00 at gmail.com writes:
Hi
Hi all,
I'm interested in doing a dot plot where *both* the size and color (more
specifically, shade of grey) change with the associated value.
I've found examples online for ggplot2 where you can scale the size of the
dot with a value:
Hi,
I am trying to use the glmnet package to do some simple feature selection.
However, I would ideally like to be able to specify the number of features
to return (the glmnet package, as far as I can tell, only allows
specification of a regularization parameter, lambda, that in turn returns a
Hi all,
I'm relatively new to using R, and have been trying to fit an L1
regularization path using coxpath from the glmpath library.
I'm interested in using a cross validation framework, where I crossvalidate
on a training set to select the lambda that achieves the lowest error, then
use that
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