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genefilter
•
reset
2
votes
12
replies
2.4k
views
I want to order genes in GO groups
gene ontology
genefilter
updated 8.6 years ago by
b.nota
▴ 360 • written 8.6 years ago by
kanacska
▴ 10
0
votes
8
replies
1.6k
views
oligo on R 2.4.1?
GO
Survival
annotate
genefilter
affy
affydata
matchprobes
affyQCReport
affyio
oligo
GO
updated 17.2 years ago by
Seth Falcon
★ 7.4k • written 17.2 years ago by
Jenny Drnevich
★ 2.2k
0
votes
9
replies
1.8k
views
problem with function rma
Normalization
rat2302
cdf
genefilter
affy
simpleaffy
affyQCReport
affyio
Normalization
updated 16.9 years ago by
Seth Falcon
★ 7.4k • written 16.9 years ago by
julin@aecom.yu.edu
▴ 80
0
votes
5
replies
1.5k
views
genefilter displaying the expression set
genefilter
genefilter
15.2 years ago
dhaarini s
▴ 70
0
votes
5
replies
1.3k
views
data() function problem
genefilter
genefilter
21.0 years ago
ZRG Zeren Gao
▴ 30
0
votes
11
replies
1.7k
views
'recursive default argument' error in GOENTREZID2GO
GO
Biobase
genefilter
graph
Category
GO
Biobase
genefilter
graph
Category
updated 16.9 years ago by
Seth Falcon
★ 7.4k • written 16.9 years ago by
Oleg Sklyar
▴ 260
0
votes
10
replies
1.9k
views
Some Genefilter questions
Normalization
Survival
Cancer
cdf
genefilter
geneplotter
affy
affydata
widgetTools
gcrma
updated 17.4 years ago by
Amy Mikhail
▴ 460 • written 17.4 years ago by
David K Pritchard
▴ 70
0
votes
11
replies
1.7k
views
Nonspecific filtering on Human Gene ST 1.0 Arrays
genefilter
genefilter
updated 14.4 years ago by
Martin Morgan
25k • written 14.4 years ago by
Javier Pérez Florido
▴ 840
0
votes
9
replies
1.6k
views
Error in calculating P-values with Genefilter function
genefilter
genefilter
updated 10.9 years ago by
James W. MacDonald
65k • written 10.9 years ago by
Guest User
★ 13k
0
votes
5
replies
1.6k
views
Importing CDF file for custom array using makecdfenv
Microarray
GO
Survival
Cancer
cdf
Biobase
annotate
genefilter
affy
graph
makecdfenv
GO
updated 17.5 years ago by
Sung-Chur Sim
▴ 20 • written 17.5 years ago by
Jenny Drnevich
★ 2.2k
0
votes
3
replies
3.3k
views
Installing genefilter
Microarray
genefilter
multtest
Microarray
genefilter
multtest
updated 19.2 years ago by
McGee, Monnie
▴ 300 • written 19.2 years ago by
Monnie McGee
▴ 20
0
votes
3
replies
1.1k
views
Recent changes to Bioconductor packages
genefilter
affy
graph
Rgraphviz
limma
annaffy
genefilter
affy
graph
Rgraphviz
limma
20.7 years ago • updated 20.6 years ago
madman@jimmy.harvard.edu
▴ 850
7
votes
5
replies
2.0k
views
Adjusted P values
limma
genefilter
updated 9.5 years ago by
Gordon Smyth
50k • written 9.5 years ago by
kaushal Raj Chaudhary
▴ 10
0
votes
6
replies
1.9k
views
2 way anova in Bioconductor
GO
genefilter
limma
GeneSpring
ABarray
preprocessCore
arrayQualityMetrics
GO
genefilter
updated 12.8 years ago by
Jenny Drnevich
★ 2.0k • written 12.8 years ago by
Dana.Stanley@csiro.au
▴ 110
0
votes
4
replies
1.2k
views
Using genefilter
genefilter
affy
limma
genefilter
affy
limma
15.9 years ago
Nathan.Watson-Haigh@csiro.au
▴ 210
0
votes
5
replies
1.9k
views
affyPLM - cant plot chip pseudo image
cdf
genefilter
affy
affydata
affyPLM
simpleaffy
affyio
cdf
genefilter
affy
affydata
updated 16.8 years ago by
James W. MacDonald
65k • written 16.8 years ago by
Tagett Rebecca
▴ 50
0
votes
5
replies
1.6k
views
getBioC v1.2.22 & [R] v1.6.2
annotate
edd
genefilter
geneplotter
rhdf5
multtest
ROC
tkWidgets
reposTools
affy
vsn
updated 21.1 years ago by
Jeff Gentry
★ 3.9k • written 21.1 years ago by
White, Charles E WRAIR-Wash DC
▴ 70
4
votes
4
replies
2.1k
views
Suggestions for non-specific filtering criteria with limma
limma
genefilter
updated 8.3 years ago by
Wolfgang Huber
★ 13k • written 8.4 years ago by
rvinisko
▴ 10
0
votes
11
replies
2.7k
views
trouble hacking plotPCA
GO
Survival
Biobase
genefilter
affy
affydata
graph
limma
gcrma
matchprobes
affyPLM
RBGL
updated 17.4 years ago by
Rustici, Gabriella NIH/NCI [F]
▴ 10 • written 17.4 years ago by
Jenny Drnevich
★ 2.2k
0
votes
6
replies
1.9k
views
ReadAffy Error: new versions causing problems?
genefilter
gcrma
matchprobes
simpleaffy
affyio
genefilter
gcrma
matchprobes
simpleaffy
updated 16.9 years ago by
Julien Gagneur
▴ 20 • written 16.9 years ago by
Boel Brynedal
▴ 200
0
votes
4
replies
1.2k
views
problems with Affy vignette and affybatch objects
GO
Survival
cdf
Biobase
annotate
genefilter
multtest
reposTools
affy
affydata
graph
GO
updated 17.5 years ago by
Martin Morgan
25k • written 17.5 years ago by
Jenny Drnevich
★ 2.2k
0
votes
2
replies
2.4k
views
[R] Select single probe-set with median expression from multiple probe-sets corresponding to same gene -AFFY
GO
probe
Biobase
genefilter
GO
probe
Biobase
genefilter
updated 11.1 years ago by
Martin Morgan
25k • written 11.1 years ago by
Atul Kakrana
▴ 30
1
vote
2
replies
1.3k
views
removal of probes called "Absent"
probe
genefilter
probe
genefilter
updated 13.8 years ago by
Iain Gallagher
▴ 930 • written 13.8 years ago by
Hernando Martínez
▴ 100
9
votes
10
replies
2.1k
views
Any efficient workaround to identify highly variable genes in Affymetrix microarray expression data?
limma
microarray
genefilter
deseq2
4.9 years ago
Jurat Shahidin
▴ 80
0
votes
4
replies
1.1k
views
Does factDesign deal with two-color data?
Microarray
genefilter
affy
factDesign
Microarray
genefilter
affy
factDesign
updated 14.9 years ago by
Denise Scholtens
▴ 70 • written 14.9 years ago by
De-Jian ZHAO
▴ 240
0
votes
2
replies
2.9k
views
Error in function (classes, fdef, mtable)
cdf
genefilter
reposTools
gcrma
matchprobes
affyPLM
simpleaffy
affyio
cdf
genefilter
updated 17.4 years ago by
Seth Falcon
★ 7.4k • written 17.4 years ago by
D.Enrique ESCOBAR ESPINOZA
▴ 360
0
votes
3
replies
837
views
multtest dependencies
Survival
genefilter
multtest
reposTools
Survival
genefilter
multtest
reposTools
19.1 years ago
Francois Pepin
★ 1.3k
0
votes
4
replies
1.7k
views
how to unlock a package environment
Annotation
Arabidopsis thaliana
ath1121501
genefilter
Annotation
Arabidopsis thaliana
updated 14.6 years ago by
Marc Carlson
★ 7.2k • written 14.6 years ago by
Ariel Chernomoretz
▴ 170
0
votes
12
replies
1.9k
views
Some Genefilter questions
GO
Survival
cdf
genefilter
geneplotter
tkWidgets
affy
affydata
widgetTools
gcrma
affyPLM
updated 17.4 years ago by
rgentleman
★ 5.5k • written 17.4 years ago by
Amy Mikhail
▴ 460
1
vote
3
replies
9.0k
views
genefilter installation error
genefilter
genefilter
updated 9.7 years ago by
Cherif Ben Hamda
▴ 150 • written 9.7 years ago by
Subinoy Biswas
▴ 10
0
votes
8
replies
2.1k
views
genefiltering before or after the normalization?
Normalization
genefilter
Normalization
genefilter
updated 15.8 years ago by
Jenny Drnevich
★ 2.0k • written 15.8 years ago by
Abhilash Venu
▴ 340
0
votes
2
replies
1.2k
views
Problems encountered using affy in R
Biobase
annotate
genefilter
multtest
ROC
tkWidgets
affy
vsn
Biobase
annotate
genefilter
updated 21.2 years ago by
Vincent J. Carey, Jr.
6.7k • written 21.2 years ago by
mary.e.logue@ucd.ie
▴ 20
0
votes
2
replies
1.6k
views
Can't load annotations with lumi
Microarray
OneChannel
Annotation
Normalization
probe
Biobase
annotate
genefilter
affy
vsn
updated 15.4 years ago by
Pan Du
★ 1.2k • written 15.4 years ago by
Steve Taylor
▴ 280
0
votes
2
replies
975
views
newbie Q about object identity
GUI
Biobase
genefilter
GUI
Biobase
genefilter
updated 16.6 years ago by
Martin Morgan
25k • written 16.6 years ago by
Thomas Elliott
▴ 20
0
votes
2
replies
1.0k
views
error with GOHyperG
drosophila2
cdf
Biobase
annotate
genefilter
multtest
RBGL
GOstats
drosophila2
cdf
RBGL
updated 17.7 years ago by
Seth Falcon
★ 7.4k • written 17.7 years ago by
Tony Long
▴ 10
0
votes
8
replies
3.2k
views
Reading Agilent files using read.maimages
Survival
DynDoc
genefilter
tkWidgets
affy
vsn
marray
convert
ArrayExpress
Survival
affy
updated 16.7 years ago by
Scott Reagan Franklin
▴ 20 • written 16.7 years ago by
Steve Taylor
▴ 100
0
votes
2
replies
1.6k
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
17.2 years ago
Mark W Kimpel
▴ 830
0
votes
2
replies
1.3k
views
problem with latest version of graph
GO
annotate
genefilter
multtest
affy
graph
Rgraphviz
RBGL
GOstats
affyio
affycoretools
17.9 years ago
Kimpel, Mark W
▴ 890
0
votes
5
replies
964
views
Failing to install genefilter-1.12.0
genefilter
genefilter
updated 17.1 years ago by
Seth Falcon
★ 7.4k • written 17.1 years ago by
Benilton Carvalho
★ 4.3k
0
votes
3
replies
1.4k
views
error in mas5calls() for soybean chip
Survival
hu6800
cdf
probe
Biobase
genefilter
reposTools
affy
affydata
limma
gcrma
made4
updated 18.0 years ago by
Ken Simpson
▴ 70 • written 18.0 years ago by
Jenny Drnevich
★ 2.2k
0
votes
6
replies
3.3k
views
how to convert a AffyBatch into ExpressionSet object ?
Annotation
GO
Survival
ExperimentData
cdf
DynDoc
genefilter
geneplotter
multtest
affy
GO
updated 16.7 years ago by
Weiyin Zhou
▴ 220 • written 16.7 years ago by
Jenny Drnevich
★ 2.2k
0
votes
2
replies
1.2k
views
Chromosome 23 and 24 dropped after run snapCGH processCGH
aCGH
Survival
Cancer
annotate
genefilter
affy
DNAcopy
aCGH
GLAD
tilingArray
snapCGH
updated 16.6 years ago by
J-C. Marioni
▴ 40 • written 16.6 years ago by
caiwei@mdanderson.org
▴ 110
0
votes
2
replies
1.3k
views
gregmisc package-problems with BioC latest release?
Biobase
annotate
edd
genefilter
geneplotter
ROC
limma
siggenes
affyPLM
marray
Biobase
updated 19.5 years ago by
Seth Falcon
★ 7.4k • written 19.5 years ago by
Fátima Núñez
▴ 130
0
votes
3
replies
1.2k
views
Install of 1.5 Packages fails
GO
edd
genefilter
annaffy
affyPLM
marray
GO
edd
genefilter
annaffy
affyPLM
marray
updated 19.5 years ago by
rgentleman
★ 5.5k • written 19.5 years ago by
Thomas Girke
★ 1.7k
0
votes
2
replies
1.0k
views
justRMA using incorrect default cdf
GO
Survival
rat2302
cdf
annotate
genefilter
affy
limma
affycoretools
GO
Survival
cdf
18.2 years ago
Kimpel, Mark W
▴ 890
0
votes
2
replies
890
views
error in installing Bioconductor development packages
Biobase
annotate
genefilter
reposTools
affy
Biobase
annotate
genefilter
reposTools
affy
updated 19.2 years ago by
Seth Falcon
★ 7.4k • written 19.2 years ago by
Tom Shi
▴ 10
0
votes
2
replies
1.1k
views
where can I find the GO and xtable package?
GO
Biobase
annotate
genefilter
graph
RBGL
GOstats
GO
Biobase
annotate
genefilter
graph
updated 19.7 years ago by
rgentleman
★ 5.5k • written 19.7 years ago by
Dr Gyorffy Balazs
▴ 320
0
votes
3
replies
1.2k
views
GOstats hyperGTest question
Biobase
annotate
genefilter
multtest
graph
Biobase
annotate
genefilter
multtest
graph
updated 17.3 years ago by
Seth Falcon
★ 7.4k • written 17.3 years ago by
ivan.borozan@utoronto.ca
▴ 80
0
votes
2
replies
1.2k
views
simpleaffy and yeast2cdf problems
Survival
cdf
genefilter
affy
simpleaffy
Survival
cdf
genefilter
affy
simpleaffy
updated 17.3 years ago by
Alvord, Greg DMS [Contr]
▴ 160 • written 17.3 years ago by
Dan Swan
▴ 50
0
votes
2
replies
1.5k
views
problem loading affycoretools
Survival
hgu95av2
Biobase
Ruuid
annotate
genefilter
multtest
affydata
graph
limma
gcrma
17.7 years ago
Jenny Drnevich
★ 2.2k
50 results • Page
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Comment: Why p value inconsistent when using different number of pathway score?
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Hi Robert, if two conditions don't have hundreds of differential express genes ( in some conditions such as peripheral blood Alzheimer vs n…
Answer: Dominance Index for Shotgun Metagenomics Data
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1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…
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Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …
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For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
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Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…
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Answer: Dominance Index for Shotgun Metagenomics Data
Answer: Math expression in shapeCustom legend in EnhancedVolcano
Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length
Comment: Deseq2. decontXcounts not integers. Useful alternative?
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