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911
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Re: RMA vs VSN
Normalization
Preprocessing
Cancer
probe
affy
vsn
gcrma
Normalization
Preprocessing
probe
21.6 years ago
Wolfgang Huber
★ 13k
0
votes
2
replies
1.2k
views
Affymetrix Limma design/contrast matrix
limma
limma
updated 21.6 years ago by
Gordon Smyth
53k • written 21.6 years ago by
Matthew Hannah
▴ 940
0
votes
0
replies
966
views
limmaGUI update
limma
limmaGUI
limma
limmaGUI
21.6 years ago
James Wettenhall
▴ 1000
0
votes
1
reply
1.3k
views
loading CEL files in affylmGUI
Annotation
affylmGUI
Annotation
affylmGUI
updated 21.6 years ago by
James Wettenhall
▴ 1000 • written 21.6 years ago by
Isaac Mehl
▴ 60
0
votes
2
replies
1.3k
views
Regarding Tcltk and CDF error
Cancer
cdf
rhdf5
Rgraphviz
Cancer
cdf
rhdf5
Rgraphviz
updated 21.6 years ago by
James Wettenhall
▴ 1000 • written 21.6 years ago by
SAURIN
★ 1.1k
0
votes
5
replies
1.7k
views
regarding saving R graphis images directly to directory
updated 21.6 years ago by
Kasper Daniel Hansen
▴ 630 • written 21.6 years ago by
SAURIN
★ 1.1k
0
votes
1
reply
1.1k
views
DNA, not RNA: motif mining
updated 21.6 years ago by
Harry Mangalam
▴ 60 • written 21.6 years ago by
Johnnidis, Jonathan
▴ 50
0
votes
0
replies
778
views
marray on R 1.9.1
21.6 years ago
nataraja@mit.edu
▴ 30
0
votes
1
reply
858
views
Error Installing Rgraphviz
updated 21.6 years ago by
Jeff Gentry
★ 3.9k • written 21.6 years ago by
Rohit Ghai
▴ 80
0
votes
0
replies
734
views
correction in my tcltk and CDF error question........
cdf
cdf
21.6 years ago
SAURIN
★ 1.1k
0
votes
2
replies
944
views
limma publications
Microarray
Microarray
21.6 years ago
Naomi Altman
★ 6.0k
0
votes
0
replies
740
views
limma prior
Microarray
limma
Microarray
limma
21.6 years ago
Naomi Altman
★ 6.0k
0
votes
0
replies
493
views
Fwd: Re: regarding saving R graphis images directly to directory
21.6 years ago
SAURIN
★ 1.1k
0
votes
1
reply
952
views
Error when using spacialLayout in package arrayMagic
updated 21.6 years ago by
Andreas Buness
▴ 40 • written 21.6 years ago by
Irene Li
▴ 30
0
votes
3
replies
1.5k
views
Error in parse() loading affylmGUI
affylmGUI
affylmGUI
updated 21.6 years ago by
James Wettenhall
▴ 1000 • written 21.6 years ago by
Paul Boutros
▴ 340
0
votes
1
reply
1.0k
views
large data set under 32 bits architecture
GO
affy
gcrma
GO
affy
gcrma
updated 21.6 years ago by
Marcus Davy
▴ 680 • written 21.6 years ago by
Phguardiol@aol.com
▴ 720
0
votes
6
replies
2.5k
views
RMA vs VSN
Preprocessing
vsn
Preprocessing
vsn
21.6 years ago
Roger Vallejo
▴ 120
0
votes
0
replies
775
views
affy installation problem
affy
affy
21.6 years ago
Claudio Lottaz
▴ 110
0
votes
0
replies
743
views
BATCH: line 55: 5681 Broken pipe cat ${in}
21.6 years ago
SAURIN
★ 1.1k
0
votes
0
replies
774
views
regarding tcltk-Ex.R X11 error 1
21.6 years ago
SAURIN
★ 1.1k
0
votes
1
reply
1.1k
views
limmaGUI and dupcor.series error
limmaGUI
limmaGUI
updated 21.6 years ago by
James Wettenhall
▴ 1000 • written 21.6 years ago by
Diego Diez
▴ 760
0
votes
1
reply
3.6k
views
how to install packages of older version?
GO
GO
updated 21.6 years ago by
Jeff Gentry
★ 3.9k • written 21.6 years ago by
jzhao
▴ 10
0
votes
0
replies
1.2k
views
NIH/NIST Joint Postdoc
Microarray
Microarray
21.6 years ago
Marc Salit
▴ 80
0
votes
1
reply
933
views
folate pathway is missing a key gene, MTHFR
probe
probe
updated 21.6 years ago by
John Zhang
★ 2.9k • written 21.6 years ago by
Tomas Radivoyevitch
▴ 70
0
votes
0
replies
1.5k
views
S+ArrayAnalyzer and BioConductor Announcement
Microarray
SAGE
Annotation
Infrastructure
Microarray
SAGE
Annotation
Infrastructure
21.6 years ago
MOConnell@insightful.com
▴ 20
0
votes
0
replies
815
views
PhD studentships at EBI
Cancer
Cancer
21.6 years ago
Wolfgang Huber
★ 13k
0
votes
2
replies
1.6k
views
limma/multtest comparison question
multtest
limma
multtest
limma
21.6 years ago
Sean Davis
21k
0
votes
3
replies
1.4k
views
gcrma()/rma() error
affy
affy
21.6 years ago
Michael Seewald
▴ 130
0
votes
0
replies
767
views
plot.ProbeSet
21.6 years ago
Chang, Kai-Ming
▴ 20
0
votes
1
reply
1.2k
views
New package
Survival
Survival
21.6 years ago
Jeff Gentry
★ 3.9k
0
votes
4
replies
1.5k
views
win 64bit and general BioC computing power?
GO
Clustering
affy
limma
gcrma
PROcess
GO
Clustering
affy
limma
gcrma
PROcess
updated 21.6 years ago by
Liaw, Andy
▴ 360 • written 21.6 years ago by
Matthew Hannah
▴ 940
0
votes
1
reply
1.1k
views
Expression on different Affy arrays
moe430a
probe
moe430a
probe
updated 21.6 years ago by
Park, Richard
▴ 220 • written 21.6 years ago by
donghu@itsa.ucsf.edu
▴ 70
0
votes
0
replies
936
views
Apologies for typo
21.6 years ago
Stephen Moore
▴ 70
0
votes
1
reply
912
views
Class Library Problem
updated 21.6 years ago by
Adaikalavan Ramasamy
★ 1.8k • written 21.6 years ago by
Stephen Moore
▴ 70
0
votes
0
replies
1.1k
views
Webbioc
webbioc
webbioc
21.6 years ago
Phguardiol@aol.com
▴ 720
0
votes
1
reply
2.8k
views
old versions of bioconductor packages
updated 21.6 years ago by
Jeff Gentry
★ 3.9k • written 21.6 years ago by
Sylvia Merk
▴ 50
0
votes
1
reply
1.1k
views
annotating imprinted genes?
Annotation
Annotation
updated 21.6 years ago by
Sean Davis
21k • written 21.6 years ago by
Johnnidis, Jonathan
▴ 50
0
votes
0
replies
902
views
Multiple class gene finding
Cancer
limma
Cancer
limma
21.6 years ago
Sean Davis
21k
0
votes
0
replies
846
views
Platform independent compiler switches - affyPLM problem
affyPLM
affyPLM
21.6 years ago
Claudio Lottaz
▴ 110
0
votes
3
replies
2.3k
views
Clustering in R
Microarray
Normalization
Clustering
Microarray
Normalization
Clustering
updated 21.6 years ago by
michael watson IAH-C
★ 3.4k • written 21.6 years ago by
wmak@brandeis.edu
▴ 10
0
votes
2
replies
1.1k
views
Re: matchprobes vignette?
probe
Biobase
matchprobes
probe
Biobase
matchprobes
updated 21.6 years ago by
Michael Seewald
▴ 130 • written 21.6 years ago by
rgentleman
★ 5.5k
0
votes
0
replies
995
views
Venn Diagram Code
probe
probe
21.6 years ago
Anthony Bosco
▴ 500
0
votes
0
replies
908
views
three way comparisons with affylmgui
affylmGUI
affylmGUI
21.6 years ago
Simon Kidd
▴ 180
0
votes
10
replies
2.3k
views
(no subject)
updated 21.6 years ago by
Simon Kidd
▴ 180 • written 21.6 years ago by
Mayte Suarez-Farinas
▴ 300
0
votes
7
replies
1.8k
views
matchprobes vignette?
probe
Biobase
matchprobes
probe
Biobase
matchprobes
updated 21.6 years ago by
Jeff Gentry
★ 3.9k • written 21.6 years ago by
Michael Seewald
▴ 130
0
votes
2
replies
1.3k
views
How to put out the normalization result of limma as a *.txt file?
Normalization
GO
limma
Normalization
GO
limma
updated 21.6 years ago by
Hao Liu
▴ 130 • written 21.6 years ago by
Sean Davis
21k
0
votes
0
replies
781
views
June 28-29 Bioconductor Training Boston: Last call for registrations
21.6 years ago
Vincent J. Carey, Jr.
6.7k
0
votes
1
reply
1.3k
views
affy 1 cycle vs 2 cycle labeling kit
cycle
cycle
updated 21.6 years ago by
Michael Seewald
▴ 130 • written 21.6 years ago by
YUK FAI LEUNG
▴ 140
0
votes
0
replies
1.6k
views
Problems with aCGH package
aCGH
Genetics
Cancer
CGH
impute
aCGH
aCGH
Genetics
Cancer
CGH
impute
aCGH
21.6 years ago
grischa tödt
▴ 30
0
votes
1
reply
1.7k
views
How to import the original data into knncat?
updated 21.6 years ago by
Sean Davis
21k • written 21.6 years ago by
Liu, Xin
▴ 120
46,725 results • Page
891 of 935
Recent ...
Replies
Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink
by
ja569116
• 0
Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …
Answer: limpa analysis advice
by
Gordon Smyth
53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma
by
Gordon Smyth
53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry
by
Gordon Smyth
53k
I updated the above answer today.
Answer: When to use edgeR or limma
by
James W. MacDonald
68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Votes
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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