Displaying 7 results from an estimated 7 matches for "acgh".
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2005 Oct 03
0
unable to compute MAD in aCGH package
Hi,
I am currently using the aCGH package in R version 2.1.0 Windows with some
supporting packages (eg. cluster) built under R 2.1.1.Using aCGH package,
I am able to identify regions of genomic aberrations in my cell lines
using the HMM model. However, when I tried to use aCGH for my paraffin
embeded tumour sample, I got the fo...
2012 Jul 27
2
R bioconductor agilent aCGH analysis
Hi,
I would like to analyze some agilent aCGH copy number files. As a start, I
would like to normalize this data. I don't know what is the standard way to
do this. Which package is the standard one that people use for this
purpose? The chips that I am looking at are the agilent sure print 1M
(G4447a) array and a custom chip with similar fo...
2008 Oct 03
1
Problem with read.table in Windows and Linux
...do it under Linux I have a mistake and I don't know why. This is the mistake:
Error in make.names(col.names,unique=TRUE):
string multibyte 1 invalid
why?
I write this when I want to do it under Windows: zz.info<-read.table(file("C:/Documents and Settings/Administrador/Desktop/carlos/aCGH/aCGH/examples/Anal_sin_norm_1Mb86_Segmentos3.txt","r+"),header=TRUE,sep="\t",dec=".")
?
and under Linux:
?
zz.info<-read.table(file("/home/carlos/Desktop/Anal_sin_norm_1Mb86_Segmentos3.txt","r+"),header=TRUE,sep="\t",dec=".&qu...
2019 Nov 15
2
S3 methods in packages. Change in R 4.0.0?
...oconductor package CGHbase (Mark
van de Wiel) contains S4 plot-methods for its objects.
For whom it may be interesting the URL of my Bioconductor package:
http://bioconductor.org/checkResults/devel/bioc-LATEST/CFAssay/
Herbert Braselmann
<http://bioconductor.org/checkResults/devel/bioc-LATEST/aCGH/>
--
Abteilung Strahlenzytogenetik / Research Unit Radiation Cytogenetics
AG Integrative Biologie / Working group Integrative Biology
Tel./Phone: +49 89 3187-2878
Helmholtz Zentrum Muenchen
Deutsches Forschungszentrum fuer Gesundheit und Umwelt (GmbH)
Ingolstaedter Landstr. 1
85764 N...
2005 Nov 26
1
list.files(recursive=T) does not return directory names
...nds lots of R directories
> z <- system(paste("find", file.path(R.home(),"library"), "-name R"), intern=T)
> length(z)
[1] 665
> file.info(z[1:3])[,1:3]
size isdir mode
/dept/devel/sw/R/R.linux/R/library/aCGH/R 4096 TRUE 2755
/dept/devel/sw/R/R.linux/R/library/RBGL/R 4096 TRUE 2755
/dept/devel/sw/R/R.linux/R/library/XML/R 4096 TRUE 2755
The help file is silent on this behavior. I am writing
an emulation of these for functions for Splus and was
wondering about 3 things.
a) Is this behavior int...
2019 Nov 16
0
S3 methods in packages. Change in R 4.0.0?
...gt; van de Wiel) contains S4 plot-methods for its objects.
>
> For whom it may be interesting the URL of my Bioconductor package:
> http://bioconductor.org/checkResults/devel/bioc-LATEST/CFAssay/
>
> Herbert Braselmann
> <http://bioconductor.org/checkResults/devel/bioc-LATEST/aCGH/>
>
2004 May 17
0
Bioconductor 1.4 released
...packages from the 1.3 release are included. All current bug fixes
have been applied, and most have upgraded and provide enhanced
functionality.
SOME OF THE MAJOR UPGRADES FOR RELEASE 1.4:
===========================================
-- Proteomics (PROcess, gpls, apComplex)
-- Array CGH (DNAcopy, aCGH)
-- Cell cycle analysis (GeneTS)
-- Packages for lab assay analysis and management (prada)
-- Agilent arrays handling in limma
-- Annotation tools (Resourcer, GOstat, goTools, ontoTools)
-- Improved interfaces (limmaGUI, affylmGUI, webbioc,
-- MAGE file processing (RMAGEML)
-- affymetrix pr...