similar to: loading installes package including all needed subpackages

Displaying 20 results from an estimated 1000 matches similar to: "loading installes package including all needed subpackages"

2003 Oct 30
0
Release of Bioconductor 1.3
The Bioconductor core group would like to announce the 1.3 release of the Bioconductor software. There are many new packages as well as several major upgrades and fixes in older packages, and users are encouraged to check them out. Release 1.3 is intended to be operated with R version 1.8.X, which can be obtained at CRAN (http://cran.r-project.org/) -- WHAT FEATURES DOES THIS RELEASE PROVIDE?
2003 Oct 30
0
Release of Bioconductor 1.3
The Bioconductor core group would like to announce the 1.3 release of the Bioconductor software. There are many new packages as well as several major upgrades and fixes in older packages, and users are encouraged to check them out. Release 1.3 is intended to be operated with R version 1.8.X, which can be obtained at CRAN (http://cran.r-project.org/) -- WHAT FEATURES DOES THIS RELEASE PROVIDE?
2015 Jan 26
0
Inspect a "delayed" assigned whose value throws an error?
If it was any other environment than the global, you could use substitute: e <- new.env() delayedAssign("foo", stop("Hey!"), assign.env = e) substitute(foo, e) delayedAssign("foo", stop("Hey!")) substitute(foo) Hadley On Mon, Jan 26, 2015 at 12:53 PM, Henrik Bengtsson <hb at biostat.ucsf.edu> wrote: > Hi, I got an interesting programming
2015 Jan 26
2
Inspect a "delayed" assigned whose value throws an error?
Hi, I got an interesting programming challenge: How do you inspect an object which is assigned via delayedAssign() and that throws an error as soon as it is "touched" (=the value is evaluated)? Is it possible? MINIMAL EXAMPLE: $ R --vanilla > delayedAssign("foo", stop("Hey!")) (If you find this minimal example silly/obvious, please skip down to the real
2015 Jan 26
2
Inspect a "delayed" assigned whose value throws an error?
On Mon, Jan 26, 2015 at 12:24 PM, Hadley Wickham <h.wickham at gmail.com> wrote: > If it was any other environment than the global, you could use substitute: > > e <- new.env() > delayedAssign("foo", stop("Hey!"), assign.env = e) > substitute(foo, e) > > delayedAssign("foo", stop("Hey!")) > substitute(foo) Hmm... interesting
2004 Oct 19
1
Question about version argument of require() and library()
As far as I know, the following should work. Can anybody tell me if/where I am going wrong? > packageDescription("KEGG", field="Version") [1] "1.6.4" > require(KEGG, version="1.6.4") Loading required package: KEGG [1] FALSE Warning message: There is no package called 'KEGG', version 1.6.4 in: library(package, character.only = TRUE, logical
2006 Aug 31
1
problem with postscript output of R-devel on Windows
I have developed a problem with the postscript output of plot on Windows. My code still works properly with R 2.3 but, with R 2.4, the white text on red background does not show up. It does, however, show up when output is sent to the screen. Below is my code and sessionInfo. R version 2.4.0 Under development (unstable) (2006-08-29 r39012) i386-pc-mingw32 locale: LC_COLLATE=English_United
2006 Aug 11
1
[BioC] problem loading affycoretools (more details)
Hi again, I have been playing around with the order of loading packages, and as far as I can tell, there's nothing specific with affycoretools that's causing my Rgui to crash (i.e., shuts down and the Microsoft 'please send error report' box pops up). Instead, it has something to do with the order & type of packages that are loaded that add items to the menu bar by
2015 Apr 18
2
truncated warning messages
Hi, I was installing hundreds of packages on a machine with a single call to install.packages() and after a long time the call to install.packages() finally returned with the following warnings and errors: Warning messages: 1: packages ?hgu133aprobe?, ?hgu95av2.db?, ?BSgenome.Celegans.UCSC.ce2?, ?BSgenome.Mmusculus.UCSC.mm10?, ?BSgenome.Dmelanogaster.UCSC.dm3.masked?,
2009 Sep 17
1
Why S4 method is not visible from another package?
Dear All, maybe this is something obvious, I seem to be incapable of understanding how S4 works. So, in package 'A' I defined a "summary" method for my class: setMethod("summary", signature(object="ListHyperGResult"), function(object, pvalue=pvalueCutoff(object), categorySize=NULL) { "whatever" })
2004 May 17
0
Bioconductor 1.4 released
Greetings! The Bioconductor core group would like to announce the 5th release of Bioconductor, version 1.4. There are many new packages as well as several major upgrades and fixes in older packages, and users are encouraged to upgrade existing tools and check out the new packages. Release 1.4 is intended to be operated with R version 1.9.x, which can be obtained at CRAN
2010 Jul 06
1
Error in affypdnn package
Dear all, I am a PhD student working with Affymetrix HGU133atag array for analyzing the Latin square experiment. I was trying to generate gene expression index for hgu133atag array for PDNN model. While extracting the chiptype specific data structure, I got the following error- > library(affypdnn) Loading required package: affy Loading required package: Biobase Welcome to Bioconductor
2007 Oct 30
6
trouble installing building packages from source using R 2.6.0 on Ubuntu Gutsy AMD64
I have recently upgraded to Ubuntu Gutsy and, for the first time, am using a 64-bit installation. After failing miserably to install R from source, not a problem for me in the past with a 32-bit install, I went the route of using the Debian Etch build. This went smoothly, but I am unable to update my numerous R and BioConductor packages, getting non-zero exit status errors on each package. Is
2012 Apr 25
0
FW: [BioC] Overlay Gene Expression on SNP (copy number) data
Dear All, Thank you kindly for such detailed replies. I was looking to overlay data using algorithms so that i am able to tell which genes are differentially expressed due to changes in copy number. I did a pubmed search and found only 7 literature pieces all of which use in-house algorithms. I am yet to explore Gviz since it wouldn't work on R 2.14, would try it after upgrading to R 2.15.
2007 Feb 15
2
Problems with 'delay'/'delayedAssign' when installing data package
I downloaded: http://www.bioconductor.org/data/metaData/hgu95av2_1.7.0.tar.gz described as: Package: hgu95av2 Title: A data package containing annotation data for hgu95av2 Version: 1.7.0 Created: Wed Jan 12 16:57:23 2005 Author: Lin,Chenwei Description: Annotation data file for hgu95av2 assembled using data from public data repositories Maintainer:
2010 Jan 29
1
combine 3 affybatches
Hello, Im trying to combine 3 affybatches (1x hgu133+2 array and 2x hgu133a array) Im useing this script: library(matchprobes) library(affy) library(AnnotationDbi) library(hgu133plus2probe) library(hgu133aprobe) library(hgu133a.db) u133p2 = ReadAffy() # reading hgu133 +2 cel file into affybatch u133a1 = ReadAffy() # reading hgu133a cel file into affybatch u133a2 = ReadAffy() # reading hgu133a
2008 May 30
1
NAMESPACE & methods guidance, please
My conception of how NAMESPACE and methods in R-2.7.0 resolved a generic 'func' to a func-method was to search as follows: In 2.7.0: func --> NAMESPACE, including Imports: (and other details) --> .GlobalEnv, and eventually Depends: since these are on search() In R-devel it seems like func --> NAMESPACE, including Imports: (and other details) --> ?? but not
2012 May 06
1
how to download data from soap server using R
i don't know perl,but on server site,they give soap:lite using perl , go to--->http://www.kegg.jp/kegg/soap/doc/keggapi_manual.html i want to download data from kegg server ,using R only, how to proceed? & what is mean by SOAP client driver ? also go to http://soap.genome.jp/KEGG.wsdl -- View this message in context:
2011 Jul 31
5
Appending 4 Digits On A File Name
Greetings all, I would like to append a 4 digit number suffix to the names of my files for later use. What I am using now only produces 1 or 2 or 3 or 4 digits. ############ for (i in 1:1000) { temp <- (kegg [i,]) temp <- merge (temp, subrichcdt, by="gene") file.name <- paste ("kegg.subrichcdt.", i, ".txt", sep="")
2008 Dec 10
0
FW: Kegg.db with GOstats
-----Original Message----- From: Robert Gentleman [mailto:rgentlem@fhcrc.org] Sent: Wed 10/12/2008 18:47 To: Legaie, Roxane Subject: Re: Kegg.db with GOstats Hi Roxanne, Can you redirect your question to the mailing list. And, you can find the answer in the mailing list archives... best wishes Robert Legaie, Roxane wrote: > Dear Robert Gentleman, > I am currently working on