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Showing :
biobase
•
reset
6
votes
13
replies
2.0k
views
Comparison of Column of AnnotatedDataFrame
biobase
AnnotatedDataFrame
7.6 years ago
Dario Strbenac
★ 1.5k
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
11
replies
1.8k
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 17.0 years ago by
Oleg Sklyar
▴ 260
0
votes
10
replies
1.6k
views
subset in XPS
Normalization
Biobase
xps
Normalization
Biobase
xps
updated 15.9 years ago by
cstrato
★ 3.9k • written 15.9 years ago by
Zhibin Lu
▴ 80
2
votes
10
replies
1.8k
views
Am I on the right tracks with a 3 factor design in Limma?
r
limma
design matrix
biobase
updated 5.9 years ago by
Gordon Smyth
50k • written 5.9 years ago by
reubenmcgregor88
• 0
0
votes
9
replies
1.1k
views
make check with Biobase 2.18.0
Biobase
Biobase
updated 11.2 years ago by
Dan Tenenbaum
★ 8.2k • written 11.2 years ago by
Nigel Horne
▴ 40
0
votes
9
replies
1.9k
views
problem with duplicateCorrelation and ExpressionSet objects
GO
Survival
cdf
Biobase
graph
limma
gcrma
annaffy
affyPLM
simpleaffy
biomaRt
Category
updated 17.0 years ago by
Seth Falcon
★ 7.4k • written 17.0 years ago by
Jenny Drnevich
★ 2.2k
4
votes
8
replies
2.3k
views
Help! ExpressionSet function from Biobase not working! (issue with data structure??)
limma
biobase
ExpressionSet
updated 4.1 years ago by
Gordon Smyth
50k • written 4.1 years ago by
sa825
• 0
4
votes
8
replies
2.4k
views
ALL dataset, correct syntax using the exprs call?
ALL
bioconductor
biobase
exprs
updated 5.8 years ago by
Martin Morgan
25k • written 5.8 years ago by
detroit.drive
• 0
5
votes
7
replies
1.5k
views
Difficulty extending ExpressionSet
biobase
expressionset
eset
updated 5.8 years ago by
Martin Morgan
25k • written 5.8 years ago by
andrew.birnberg
▴ 20
0
votes
7
replies
1.3k
views
matchprobes vignette?
probe
Biobase
matchprobes
probe
Biobase
matchprobes
updated 19.9 years ago by
Jeff Gentry
★ 3.9k • written 19.9 years ago by
Michael Seewald
▴ 130
0
votes
7
replies
1.3k
views
Changes in annotations?
Annotation
hgu133plus2
Biobase
annotate
Annotation
hgu133plus2
Biobase
annotate
14.9 years ago
Alex Sanchez
▴ 90
0
votes
7
replies
2.1k
views
S4 object??
Biobase
limma
Biobase
limma
updated 14.6 years ago by
James W. MacDonald
65k • written 14.6 years ago by
Wendy Chen
▴ 40
0
votes
6
replies
1.9k
views
iFlow/flowCore installation problem
Biobase
flowCore
iFlow
Biobase
flowCore
iFlow
updated 13.2 years ago by
Dan Tenenbaum
★ 8.2k • written 13.2 years ago by
Gabriel Nathan Kaufman, Mr
▴ 60
0
votes
6
replies
1.4k
views
beginner
Biobase
Biobase
updated 21.0 years ago by
alessandro.semeria@cramont.it
▴ 80 • written 21.0 years ago by
kfbargad@lg.ehu.es
▴ 260
4
votes
6
replies
5.2k
views
Proper way to build phenoData object?
limma
affy
biobase
updated 9.3 years ago by
Guido Hooiveld
★ 4.0k • written 9.3 years ago by
chandlerjd58
▴ 10
0
votes
6
replies
1.4k
views
Error loading, on Bioconductor 1.8, exprSet generated with bioconductor 1.7
Biobase
affy
Biobase
affy
updated 18.0 years ago by
Martin Morgan
25k • written 18.0 years ago by
raffaele calogero
▴ 500
0
votes
5
replies
1.5k
views
Errors using biocLite on Apple OS X
GUI
Cancer
Breast
Biobase
GUI
Cancer
Breast
Biobase
17.8 years ago
Steven McKinney
▴ 310
0
votes
5
replies
1.9k
views
RMA and justRMA error
Cancer
cdf
Biobase
affy
gcrma
affyio
Cancer
cdf
Biobase
affy
gcrma
affyio
17.8 years ago
Aedin Culhane
▴ 510
0
votes
5
replies
2.4k
views
Unable to install packages
Biobase
Biobase
updated 12.9 years ago by
Michael Bauer
▴ 50 • written 12.9 years ago by
Heather Wick
▴ 30
0
votes
5
replies
3.3k
views
Error in .local(.Object, ...) : could not find function "checkClass"
Biobase
Biobase
updated 14.5 years ago by
Martin Morgan
25k • written 14.5 years ago by
Bucher Elmar
▴ 80
0
votes
5
replies
2.1k
views
Install a custom CDF file
makecdf
RMA
annotation
biobase
GEOquery
updated 4.9 years ago by
James W. MacDonald
65k • written 4.9 years ago by
Seymoo
• 0
0
votes
5
replies
1.5k
views
PLIER affinities redux
cdf
probe
Biobase
affy
plier
cdf
probe
Biobase
affy
plier
updated 18.6 years ago by
Crispin Miller
★ 1.1k • written 18.6 years ago by
Jeremy Gollub
▴ 60
0
votes
5
replies
1.5k
views
multiple annotations with get()?
Biobase
annotate
convert
Biobase
annotate
convert
updated 10.6 years ago by
Sean Davis
21k • written 10.6 years ago by
Ed Siefker
▴ 230
0
votes
5
replies
1.7k
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
2
votes
5
replies
3.8k
views
How to use t.test to select best features out of multiple features?
microarray
biobase
feature selection
t.test
R
updated 8.7 years ago by
svlachavas
▴ 830 • written 8.7 years ago by
babumanish837
▴ 10
0
votes
5
replies
1.5k
views
error coercing an exprSet to ExpressionSet
GO
cdf
Biobase
annotate
multtest
affy
limma
RBGL
GOstats
Category
affycoretools
GO
cdf
updated 17.5 years ago by
Seth Falcon
★ 7.4k • written 17.5 years ago by
Kimpel, Mark W
▴ 890
0
votes
4
replies
870
views
Problem with invalid GO term in HyperGResult object - NOT solved
GO
Biobase
GO
Biobase
updated 16.7 years ago by
James W. MacDonald
65k • written 16.7 years ago by
Martin Morgan
25k
0
votes
4
replies
1.1k
views
Communicating gene-probe relationships to sam
SNP
Biobase
siggenes
SNP
Biobase
siggenes
18.1 years ago • updated 18.0 years ago
Charles Crane
▴ 30
0
votes
4
replies
2.1k
views
Installing affy package
Biobase
affy
Biobase
affy
updated 14.5 years ago by
Keith Satterley
▴ 450 • written 14.5 years ago by
dorothyc
▴ 140
0
votes
4
replies
3.0k
views
Error : package slot missing from signature for generic
Biobase
lumi
oligoClasses
Biobase
lumi
oligoClasses
11.8 years ago
Mark Cowley
▴ 910
0
votes
4
replies
1.9k
views
Failure to load Biobase
Biobase
affy
limma
gcrma
matchprobes
affyio
Biobase
affy
limma
gcrma
matchprobes
affyio
updated 18.0 years ago by
Martin Morgan
25k • written 18.0 years ago by
Jenny Drnevich
★ 2.2k
0
votes
4
replies
1.1k
views
ABPkgBuilder Error; Again: Solved
Annotation
GO
Cancer
Organism
Biobase
annotate
AnnBuilder
PROcess
Annotation
GO
Cancer
updated 18.8 years ago by
Seth Falcon
★ 7.4k • written 18.8 years ago by
Barry Henderson
▴ 250
2
votes
4
replies
2.5k
views
error: namespace Loading DESeq2
deseq2
error namespace
biobase
updated 5.4 years ago by
James W. MacDonald
65k • written 5.4 years ago by
jpcourneya
• 0
3
votes
4
replies
2.1k
views
R session aborted: prcomp
Biobase
stats
updated 3.1 years ago by
Kevin Blighe
★ 3.9k • written 3.1 years ago by
Gero
• 0
0
votes
4
replies
1.1k
views
Recent changes to Bioconductor packages
Annotation
GO
Biobase
Annotation
GO
Biobase
20.6 years ago • updated 20.5 years ago
madman@jimmy.harvard.edu
▴ 850
0
votes
4
replies
1.7k
views
[R-SIG-Mac] Mac os x graphviz-Rgraphviz problem
Biobase
annotate
geneplotter
graph
Rgraphviz
BUS
Biobase
annotate
geneplotter
graph
BUS
updated 17.3 years ago by
Seth Falcon
★ 7.4k • written 17.3 years ago by
Kasper Daniel Hansen
★ 6.5k
1
vote
4
replies
620
views
Help for SeqVarData function
Biobase
SeqVarTools
9 months ago
pjuge
• 0
0
votes
4
replies
21k
views
Unable to find an inherited method for function ‘exprs’
Biobase
GEOquery
virtualArray
Biobase
GEOquery
virtualArray
updated 10.8 years ago by
Wolfgang Huber
★ 13k • written 10.8 years ago by
Dave Tang
▴ 210
0
votes
4
replies
1.0k
views
Which package "Multiget" belongs
Biobase
reposTools
affy
Biobase
reposTools
affy
19.9 years ago
nbing
▴ 30
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 17.6 years ago by
Martin Morgan
25k • written 17.6 years ago by
Jenny Drnevich
★ 2.2k
0
votes
4
replies
1.3k
views
`exprs<-` Allows setting assay data matrix size that doesn't match se.exprs
Biobase
updated 7.7 years ago by
Kasper Daniel Hansen
★ 6.5k • written 7.8 years ago by
psmirnov2000
• 0
2
votes
4
replies
1.4k
views
Failed to install Biobase
GSVA
Biobase
updated 13 months ago by
James W. MacDonald
65k • written 13 months ago by
johann.brisseau
• 0
0
votes
3
replies
1.2k
views
Newbie 'rflowcyt' question; problem loading facscan256.fcs
Biobase
rflowcyt
Biobase
rflowcyt
updated 18.0 years ago by
Nolwenn LeMeur
▴ 140 • written 18.0 years ago by
Ulrik Stervbo
▴ 80
0
votes
3
replies
1.5k
views
error in mas5calls() for soybean chip
Survival
hu6800
cdf
probe
Biobase
genefilter
reposTools
affy
affydata
limma
gcrma
made4
updated 18.1 years ago by
Ken Simpson
▴ 70 • written 18.1 years ago by
Jenny Drnevich
★ 2.2k
0
votes
3
replies
1.3k
views
GOHyperGResult in a data.frame, possible NAMESPACE problem?
GO
Biobase
annotate
PROcess
GOstats
Category
AnnotationDbi
GO
Biobase
annotate
PROcess
updated 14.4 years ago by
Seth Falcon
★ 7.4k • written 14.4 years ago by
Robert Castelo
★ 3.3k
0
votes
3
replies
2.3k
views
trouble installing "affy" package
Biobase
tkWidgets
affy
Biobase
tkWidgets
affy
20.3 years ago
Jeffrey Chang
▴ 40
0
votes
3
replies
1.4k
views
bugs in arrayQuality and marray
Normalization
Biobase
hexbin
arrayQuality
marray
Normalization
Biobase
hexbin
arrayQuality
18.5 years ago
Paquet, Agnes
▴ 500
0
votes
3
replies
1.2k
views
oligo package cannot read files when gdata is loaded
Biobase
oligo
Biobase
oligo
14.3 years ago
Benilton Carvalho
★ 4.3k
0
votes
3
replies
1.0k
views
Missing function locuslinkQuery and locuslinkBYID in annotate 1.18.0
GO
hgu95av2
Biobase
annotate
GO
hgu95av2
Biobase
annotate
updated 15.6 years ago by
Marc Carlson
★ 7.2k • written 15.6 years ago by
McGee, Monnie
▴ 300
50 results • Page
1 of 1
Recent ...
Replies
Answer: all variables in design formula must be columns in colData (Deseq2) error
by
ATpoint
★ 4.1k
Your code is poorly readable. Suggest you select and then highlight with markdown using the `10101` button. Generally, colData(dds) must…
Answer: Subsetting RNAseq data | voomaByGroup()
by
Gordon Smyth
50k
Judging from your MDS plot, cell types 1 and 2 look radically different, so it would make perfect sense to analyse them separately. There's…
Answer: Numerical differences in DESeq2 output depending on different design matrix cons
by
Michael Love
42k
Yes there can be small numerical differences in the estimated quantities because of how the algorithms decide to stop iterating.
Answer: DESeq2- Mysterious interaction suppresses DEGs
by
Michael Love
42k
Removing samples from one group nevertheless changes the variance estimation (dispersion) for all comparisons. So you could have pushed one…
Comment: Ensembl plants at annotationHub?
by
Daniele
• 0
Hi, I'm using Ensembl Plants release 59 with the IWGSC RefSeq v1.1 gene annotation. Thanks a lot for replying so quickly!
Votes
Answer: Error while installing BiocManager::install("org.Vdahliae.eg.db")
Comment: How can I create a eigencorplot of pca created from deseq2 object with PCAtools
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Answer: Importing a GraphNEL into Cytoscape with RCy3 with error: "Error in cyrestPUT(pa
Rsubread counting peaks ATACseq
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Dario Strbenac
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3.9k
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