Displaying 20 results from an estimated 300 matches similar to: "Help on tcl/tk package installation"
2006 Sep 07
1
Memory allocation
Dear list,
I have been trying to run the function "qvalue" under the package qvalue
on a vector with about 20 million values.
> asso_p.qvalue<-qvalue(asso_p.vector)
Error: cannot allocate vector of size 156513 Kb
> sessionInfo()
Version 2.3.1 (2006-06-01)
i686-pc-linux-gnu
attached base packages:
[1] "methods" "stats" "graphics"
2011 Oct 28
1
Downloading Error
Hi,
I am trying to install qvalue, however its giving installation error ->
Error : package 'tcltk' does not have a name space
ERROR: lazy loading failed for package ?qvalue?
* removing ?/home/sbw/R/x86_64-unknown-linux-gnu-library/2.12/qvalue?
The downloaded packages are in
?/tmp/RtmpKnS1X4/downloaded_packages?
Warning message:
In install.packages(pkgs = pkgs, repos = repos, ...)
2010 Aug 28
1
Calculating p and q values with R
Hi,
I have a huge dataset (53 million records). I have to calculate the p and q
values of my data. How can I do it in R or perl? I have downloaded R (I'm
completely new to R). and the package qvalue but I don't understand how can
I call/use qvalue package with R. When I type library(qvalue), it gives me
an error that this package doesn't exist. What should I do?
Thanks!
--
View this
2011 Apr 18
1
qvalue
I am using storey's qvalue package but I keep on getting errors. Why is
this?
> qvalue(p, lambda=0.5)$pi0
[1] "ERROR: p-values not in valid range."
Error in qvalue(p, lambda = 0.5)$pi0 :
$ operator is invalid for atomic vectors
--
Thanks,
Jim.
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2018 Jul 10
1
Updating qvalue and xtable
Good Morning Everyone,
I was going through my list of FTBFS packages today and I fixed all my R
packages but 2: qvalue and xtable.
qvalue requires ggplot2
xtable requires: lsmeans, spdep, splm, sphet, plm
I am not doing any R anymore these days and in fact spot has been the one
maintaining most of my R packages these days (thanks spot!!), so I am not really
interested in maintaining more R
2006 Oct 02
1
qvalue
Dear colleagues,
This is not strictly a R question, but I hope it is ok to ask on the
list.
I fed a vector of p-values from about 20 million anova tests to the
package q-value and obtained this output:
> qsummary(asso_p.qvalue)
Call:
qvalue(p = asso_p.vec)
pi0: 1
Cumulative number of significant calls:
<1e-04 <0.001 <0.01 <0.025 <0.05 <0.1 <1
2011 Apr 19
1
How to get the tuning parameter lamda in storey's qvalue package
Dear All,
In Storey's estimator of the proportion of true nulls, the estimator depends on the tuning parameter lamda.
Suppose now that an estimator of this proportion has been obtained by the qvalue package, what is the lamda that
corresponds to the estimate? How to get this lamda?
Thanks,
-Chee
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2010 Oct 30
2
'tcltk' does not have a name space
Hi, All
I got trouble on installing the qvalue package. Error message: package
'tcltk' does not have a name space
[cchen1 at ibibmem Yale_CB]$ R CMD INSTALL qvalue.tar.gz
* installing to library '/cchome/cchen1/R/x86_64-unknown-linux-gnu-library/2.10'
* installing *source* package 'qvalue' ...
** R
** data
** inst
** preparing package for lazy loading
Error : package
2004 Dec 19
1
limma, FDR, and p.adjust
I am posting this to both R and BioC communities because I believe there
is a lot of confusion on this topic in both communities (having searched
the mail archives of both) and I am hoping that someone will have
information that can be shared with both communities.
I have seen countless questions on the BioC list regarding limma
(Bioconductor) and its calculation of FDR. Some of them involved
2004 Dec 19
1
limma, FDR, and p.adjust
I am posting this to both R and BioC communities because I believe there
is a lot of confusion on this topic in both communities (having searched
the mail archives of both) and I am hoping that someone will have
information that can be shared with both communities.
I have seen countless questions on the BioC list regarding limma
(Bioconductor) and its calculation of FDR. Some of them involved
2011 May 20
1
How to do covariate adjustment in R
Hi, I have a question about how to do covariate adjustment.
I have two sets of 'gene expression' data. They are from two different
tissue types, 'liver' and 'brain', respectively.
The purpose of my analysis is to compare the pattern of the whole genome
'gene expression' between the two tissue types.
I have 'age' and 'sex' as covariates. Since
2007 Sep 20
1
packages MANOR, qvalue, and tkWidgets fail install on Fedora 7 with latest R-beta build
Had some packages fail install so I updated to today's R-beta release.
On updating packages the following packages still fail. sessionInfo
follows. Mark
Warning messages:
1: In install.packages(update[instlib == l, "Package"], l, contriburl =
contriburl, :
installation of package 'MANOR' had non-zero exit status
2: In install.packages(update[instlib == l,
2005 Nov 28
4
Games-Howell, Gabriel, Hochberg
Hello,
I read a book about statistics in psychology. The authors use SPSS. They
talk about post hoc tests after ANOVA finds significant effects:
- Gabriel's procedure (for equal or slightly different sample sizes)
- Hochberg's GT2 (for different sample sizes)
- Games-Howell procedure (for populations with unequal variances)
I could not find them in R. Do they not exist in R
2004 Dec 20
1
[BioC] limma, FDR, and p.adjust
You asked the same question on the Bioconductor mailing list back in August. At that time, you
suggested yourself a solution for how the adjusted p-values should be interpreted. I answered
your query and told you that your interpretation was correct. So I'm not sure what more can be
said, except that you should read the article Wright (1992), which is cited in the help entry for
p.adjust(),
2010 Jun 09
1
Problem with library(SSPA)
Hello,
I have the fellowing problem and I am thankful for any advice!
Regards,
Samuel
################################################################
> source("http://bioconductor.org/biocLite.R")
BioC_mirror = http://www.bioconductor.org
Change using chooseBioCmirror().
> biocLite("SSPA")
Using R version 2.11.0, biocinstall version 2.6.7.
Installing
2004 Dec 18
1
Setting up asterisk for one user in private ip NAT.
Hi.
I've just bought SIP telephony service from a Swedish telco.
I've managed to make and receive calls with kphone.
Now I want to set up asterisk to be able to add fancy features like
voice mail and recording conversations. But first I
have to get the basic setup right. I'm running asterisk and kphone on
the same machine, behind at NAT-router.
When I make a call (from my regular
2007 Nov 19
1
Finding proportion of observations that are outliers from the left tail of the normal distribution
Hi fellow users
I have a new R problem i am hoping to get some pointers on. I have a
dataset that is approximately normally distributed but with a fat left
tail. I am interested in a good measurement on how much fatter the
left tail is than can be expected from a normal distribution. One
thing I'll tried was fitting a two component mixture model with the
Rmix package but i am also interested
2005 Jun 08
2
CRAN task view for genetics
Hello to everyone!
I have built CRAN task view for genetics. For now I have not submit it
to CRAN yet and it can be accessible from:
http://www.bfro.uni-lj.si/MR/ggorjan/software/R/Genetics.html
http://www.bfro.uni-lj.si/MR/ggorjan/software/R/Genetics.ctv
I have not submitted it to CRAN, since I would like first some opinion
about it. Genetics is really so broad field that I belive one person
2009 Sep 15
0
trouble installing qvalue package
Hello all,
I'm trying to use the package qvalue. Upon trying to install it I'm running
into trouble. I re-downloaded and installed the most recent CRAN
distribution of R which announced itself to have tcltk included. Now when I
try to load qvalue I'm getting errors that seem to indicate that I need
tcltk2. I tried going to get that package and loading it but both qvalue and
tcltk seem
2012 Oct 30
1
Is there an lm() equivalent of panel.lmline()?
panel.lmline returns intercept and slope of y ~ x subsetted to the
combination of conditioning factors given to xyplot in lattice.
for instance:
xyplot(Xvalues ~ log(Qvalues)|Tfac, data = df7, panel = panel.lmline)
I am looking to find the equivalent formulation for lm() proper. If I do
this:
lmcal <- lm(Xvalues ~ log(Qvalues):Tfac, data = df7)
Only one value of the intercept is returned.