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Showing :
affyio
•
reset
0
votes
1
reply
1.2k
views
Needed help on maanova fitmaanova function
affy
vsn
limma
maanova
affyio
affy
vsn
limma
maanova
affyio
18.4 years ago
Marcelo Laia
▴ 450
0
votes
3
replies
2.0k
views
beadarray package: problem with bead level data
geneplotter
affy
affyio
beadarray
quantsmooth
beadarraySNP
geneplotter
affy
affyio
updated 18.4 years ago by
Mike Smith
▴ 40 • written 18.4 years ago by
Krys Kelly
▴ 270
0
votes
5
replies
2.4k
views
affyPLM - cant plot chip pseudo image
cdf
genefilter
affy
affydata
affyPLM
simpleaffy
affyio
cdf
genefilter
affy
affydata
updated 18.5 years ago by
James W. MacDonald
68k • written 18.5 years ago by
Tagett Rebecca
▴ 50
0
votes
1
reply
1.5k
views
beadarray readIllumina suggestions
Microarray
Annotation
geneplotter
affy
affyio
beadarray
quantsmooth
beadarraySNP
affy
updated 18.5 years ago by
Matt Ritchie
▴ 460 • written 18.5 years ago by
Keith James
▴ 10
0
votes
3
replies
3.4k
views
ReadAffy - Error VECTOR_ELT() can only be applied to a 'list', not a 'char'
affy
affyio
affy
affyio
updated 18.5 years ago by
Ben Bolstad
★ 1.2k • written 18.5 years ago by
Aedin Culhane
▴ 510
1
vote
2
replies
1.8k
views
se.exprs extractor question
probe
affy
affyio
probe
affy
affyio
updated 18.5 years ago by
Richard Pearson
▴ 390 • written 18.5 years ago by
Kellie J. Archer, Ph.D.
▴ 120
0
votes
0
replies
1.2k
views
Fwd: limma gene symbol not avialable problem
Microarray
Annotation
Cancer
cdf
probe
annotate
affy
affydata
limma
matchprobes
affyio
18.6 years ago
lidaof
▴ 450
0
votes
3
replies
1.8k
views
limma gene symbol not avialable problem
cdf
affy
affydata
limma
affylmGUI
affyio
cdf
affy
affydata
limma
affylmGUI
affyio
updated 18.6 years ago by
James W. MacDonald
68k • written 18.6 years ago by
lidaof
▴ 450
0
votes
0
replies
1.3k
views
Bioconductor web page
GO
Cancer
tkWidgets
reposTools
widgetTools
simpleaffy
affyQCReport
affyio
GO
Cancer
18.6 years ago
Seth Falcon
★ 7.4k
0
votes
9
replies
2.5k
views
problem with function rma
Normalization
rat2302
cdf
genefilter
affy
simpleaffy
affyQCReport
affyio
Normalization
updated 18.6 years ago by
Seth Falcon
★ 7.4k • written 18.6 years ago by
julin@aecom.yu.edu
▴ 80
0
votes
6
replies
2.0k
views
mas5 update.default problem
hgu95av2
cdf
affy
affyio
hgu95av2
cdf
affy
affyio
updated 18.6 years ago by
Seth Falcon
★ 7.4k • written 18.6 years ago by
David Ruau
▴ 190
0
votes
6
replies
2.4k
views
ReadAffy Error: new versions causing problems?
genefilter
gcrma
matchprobes
simpleaffy
affyio
genefilter
gcrma
matchprobes
simpleaffy
updated 18.6 years ago by
Julien Gagneur
▴ 20 • written 18.6 years ago by
Boel Brynedal
▴ 200
0
votes
0
replies
840
views
(no subject)
hgu95av2
cdf
affy
affyio
hgu95av2
cdf
affy
affyio
18.6 years ago
David Ruau
▴ 190
0
votes
0
replies
761
views
Suggestions for upgrading BioC (was: ReadAffy problem)
Cancer
affyio
Cancer
affyio
18.7 years ago
Seth Falcon
★ 7.4k
0
votes
1
reply
1.5k
views
paired design, LIMMA
cdf
tkWidgets
affy
widgetTools
limma
affyio
cdf
tkWidgets
affy
widgetTools
limma
affyio
updated 18.7 years ago by
Lev Soinov
▴ 470 • written 18.7 years ago by
Gordon Smyth
53k
0
votes
2
replies
1.2k
views
steps to manually build AffyBatch object
GO
affy
affyio
GO
affy
affyio
updated 18.7 years ago by
Sean Davis
21k • written 18.7 years ago by
Weiwei Shi
★ 1.2k
0
votes
1
reply
1.3k
views
Normalization in davidTiling demo
Normalization
GO
Survival
genefilter
geneplotter
affy
vsn
tilingArray
affyio
GO
Survival
updated 18.8 years ago by
Wolfgang Huber
★ 13k • written 18.9 years ago by
Julian Gehring
★ 1.3k
0
votes
2
replies
2.0k
views
can't load affycoretools because GOstats is broken. Can I load affycoretools without dependencies to use some functions?
GO
Survival
Biobase
genefilter
affy
limma
RBGL
GOstats
Category
affyio
affycoretools
GO
18.9 years ago
Mark W Kimpel
▴ 830
0
votes
8
replies
2.3k
views
oligo on R 2.4.1?
GO
Survival
annotate
genefilter
affy
affydata
matchprobes
affyQCReport
affyio
oligo
GO
updated 18.9 years ago by
Seth Falcon
★ 7.4k • written 18.9 years ago by
Jenny Drnevich
★ 2.2k
0
votes
0
replies
1.1k
views
affyio package usage
affxparser
affyio
affxparser
affyio
18.9 years ago
Seth Falcon
★ 7.4k
0
votes
1
reply
1.8k
views
beadarray and BeadStudio v.2.3.41
Biobase
affy
affyio
beadarray
Biobase
affy
affyio
beadarray
updated 18.9 years ago by
Mark Dunning
▴ 320 • written 18.9 years ago by
Asta Laiho
▴ 70
0
votes
1
reply
2.2k
views
using simpleaffy incorrectly, or is there a problem with the read.affy function?
Microarray
Survival
Cancer
genefilter
affy
simpleaffy
affyio
Microarray
Survival
Cancer
19.0 years ago
k. brand
▴ 420
0
votes
4
replies
2.0k
views
Problems with the size of the plots obtained with AffyPLM
cdf
affy
gcrma
affyPLM
affyio
cdf
affy
gcrma
affyPLM
affyio
updated 19.0 years ago by
Oosting, J. PATH
▴ 550 • written 19.0 years ago by
Jordi Altirriba Gutiérrez
▴ 350
0
votes
2
replies
1.3k
views
"oligo" crashes in windows XP
SNP
GO
affyio
oligo
crlmm
SNP
GO
affyio
oligo
crlmm
updated 19.0 years ago by
Benilton Carvalho
★ 4.3k • written 19.0 years ago by
Morten Mattingsdal
▴ 190
0
votes
0
replies
777
views
beadarray: problem with reading in Bead Summary Data
Biobase
affy
affyio
beadarray
Biobase
affy
affyio
beadarray
19.0 years ago
Perry Moerland
▴ 130
0
votes
2
replies
2.0k
views
problem with hist.default in affystart in package affycoretools
GO
cdf
annotate
affy
limma
RBGL
simpleaffy
GOstats
Category
affyQCReport
affyio
GO
cdf
updated 19.0 years ago by
James W. MacDonald
68k • written 19.0 years ago by
Kimpel, Mark W
▴ 890
0
votes
3
replies
1.9k
views
ExpressionSet, fitPLM confusion
cdf
probe
gcrma
matchprobes
affyPLM
affyio
cdf
probe
gcrma
matchprobes
affyPLM
affyio
updated 19.1 years ago by
Wolfgang Huber
★ 13k • written 19.1 years ago by
Georg Otto
▴ 510
0
votes
1
reply
3.2k
views
ReadAffy can not find function read.AnnotatedDataFrame
Biobase
genefilter
affydata
limma
simpleaffy
hopach
affyio
Biobase
genefilter
affydata
updated 19.1 years ago by
James W. MacDonald
68k • written 19.1 years ago by
Georg Otto
▴ 510
0
votes
2
replies
3.4k
views
Error in function (classes, fdef, mtable)
cdf
genefilter
reposTools
gcrma
matchprobes
affyPLM
simpleaffy
affyio
cdf
genefilter
updated 19.1 years ago by
Seth Falcon
★ 7.4k • written 19.1 years ago by
D.Enrique ESCOBAR ESPINOZA
▴ 360
0
votes
2
replies
1.8k
views
results of justPlier vs. RMA
Clustering
affy
plier
affyio
Clustering
affy
plier
affyio
updated 19.1 years ago by
Michal Okoniewski
▴ 120 • written 19.2 years ago by
He, Yiwen NIH/CIT
▴ 360
0
votes
0
replies
975
views
Bioconductor Digest, Vol 45, Issue 9
affy
simpleaffy
affyio
affy
simpleaffy
affyio
19.2 years ago
Dick Beyer
★ 1.4k
0
votes
0
replies
1.3k
views
simpleaffy gives error: unable to find an inherited method for function "pData"
affy
simpleaffy
affyio
affy
simpleaffy
affyio
19.2 years ago
Dick Beyer
★ 1.4k
0
votes
2
replies
1.4k
views
beadarray example data problem
Biobase
affy
affyio
beadarray
Biobase
affy
affyio
beadarray
19.2 years ago
Keith Satterley
▴ 450
0
votes
3
replies
1.4k
views
beadarray example data problem 2
Biobase
affy
affyio
beadarray
Biobase
affy
affyio
beadarray
19.2 years ago
Martin Morgan
25k
0
votes
0
replies
1.2k
views
problems reading Illumina files using BeadExplorer
affy
widgetTools
limma
marray
convert
affyio
BeadExplorer
affy
widgetTools
limma
marray
19.2 years ago
Vitalina Komashko
▴ 10
0
votes
1
reply
1.1k
views
makePlatformDesign error
affyio
oligo
makePlatformDesign
affyio
oligo
makePlatformDesign
updated 19.2 years ago by
James W. MacDonald
68k • written 19.2 years ago by
Richard Williams
▴ 20
0
votes
2
replies
1.8k
views
problem updating packages OCPlus and RSNper
affy
limma
affyio
OCplus
affy
limma
affyio
OCplus
updated 19.2 years ago by
Hervé Pagès
16k • written 19.2 years ago by
Kimpel, Mark W
▴ 890
0
votes
2
replies
1.6k
views
"normalize.quantiles.robust" produces the SAME intensities from different weights?!
Normalization
affydata
gcrma
matchprobes
affyPLM
affyio
Normalization
affydata
gcrma
updated 19.3 years ago by
Ben Bolstad
★ 1.2k • written 19.3 years ago by
k. brand
▴ 420
0
votes
0
replies
1.2k
views
method for removing consistent technical bias?
affy
affydata
vsn
limma
gcrma
matchprobes
affyPLM
affyio
affy
affydata
vsn
limma
gcrma
19.3 years ago
k. brand
▴ 420
0
votes
2
replies
1.3k
views
normalize.quantiles.robust: how to implement weights for different arrays?
cdf
gcrma
matchprobes
affyPLM
affyio
cdf
gcrma
matchprobes
affyPLM
affyio
updated 19.3 years ago by
Kasper Daniel Hansen
★ 6.5k • written 19.3 years ago by
k. brand
▴ 420
0
votes
0
replies
1.2k
views
4 replicates, of 3 tissues- one good hyb (2xreps), one bad hyb (2xreps). Best way forward?
qPCR
affy
affydata
vsn
limma
gcrma
matchprobes
affyPLM
affyio
BRAIN
qPCR
affy
affydata
19.3 years ago
k. brand
▴ 420
0
votes
2
replies
2.2k
views
summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
Microarray
Normalization
Preprocessing
Cancer
probe
affy
convert
affyio
Microarray
Cancer
19.3 years ago
James W. MacDonald
68k
0
votes
3
replies
1.4k
views
summarizing probe intensites before or after normalization- 1. how to do with RMA 2. Opinions?
Normalization
probe
affy
affyio
Normalization
probe
affy
affyio
updated 19.3 years ago by
Ben Bolstad
★ 1.2k • written 19.3 years ago by
k. brand
▴ 420
0
votes
2
replies
1.7k
views
Changing the value of sampleNames for exprSet
affy
affyio
affy
affyio
updated 19.4 years ago by
Martin Morgan
25k • written 19.4 years ago by
Jeff Lande
▴ 110
0
votes
1
reply
1.1k
views
qc
Survival
Biobase
genefilter
affy
affydata
affyPLM
simpleaffy
affyio
Survival
Biobase
updated 19.4 years ago by
James W. MacDonald
68k • written 19.4 years ago by
Per.Broberg@astrazeneca.com
▴ 10
0
votes
5
replies
2.4k
views
RMA and justRMA error
Cancer
cdf
Biobase
affy
gcrma
affyio
Cancer
cdf
Biobase
affy
gcrma
affyio
19.4 years ago
Aedin Culhane
▴ 510
0
votes
1
reply
1.3k
views
qc function missing in Linux version of simpleaffy
cdf
genefilter
affy
affydata
simpleaffy
affyQCReport
affyio
cdf
genefilter
affy
affydata
updated 19.5 years ago by
James W. MacDonald
68k • written 19.5 years ago by
Wolfgang Raffelsberger
▴ 160
0
votes
2
replies
1.5k
views
median of the NUSE value
cdf
affy
gcrma
affyPLM
affyio
cdf
affy
gcrma
affyPLM
affyio
updated 19.6 years ago by
Ben Bolstad
★ 1.2k • written 19.6 years ago by
kfbargad@ehu.es
▴ 270
0
votes
2
replies
1.7k
views
Failure to install specific packages from Bioconductor on a Linux machine running R 2.3.1
affy
gcrma
matchprobes
affyPLM
affyio
affy
gcrma
matchprobes
affyPLM
affyio
updated 19.6 years ago by
zph@herald.ox.ac.uk
▴ 50 • written 19.6 years ago by
Michael Oldham
▴ 20
0
votes
0
replies
1.4k
views
blocking in limma gives an estimability problem
GO
hgu95av2
Ruuid
multtest
affy
graph
limma
RBGL
qvalue
Category
affyio
GO
hgu95av2
19.6 years ago
Pedro López Romero
▴ 360
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Error in SummarizedExperiment(assays = SimpleList(counts = countData)
Answer: DESeq2 class error: superclass "ExpData" not defined in the environment of the o
Limma-voom sample weights and impact on DEG numbers
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