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survival
•
reset
4
votes
7
replies
4.1k
views
DESeq2 for survival analysis
deseq2
survival
rlog transformation
6.4 years ago
array chip
▴ 420
2
votes
1
reply
1.7k
views
error/warning message while doing kmTCGA survival plot
RTCGA
survival
kmTCGA
updated 7.0 years ago by
jpgsabino
▴ 10 • written 7.1 years ago by
colonppg
▴ 30
1
vote
0
replies
1.4k
views
How to compute 95%CI after having C-index value?
survival
nomogram
cph
95CI
4.3 years ago
huynguyen96.dnu
▴ 30
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
0
replies
1.1k
views
BioC 2.0 is available
SNP
Microarray
Genetics
Annotation
Visualization
Bayesian
Survival
GUI
Cancer
adme16cod
17.0 years ago
Seth Falcon
★ 7.4k
0
votes
9
replies
1.8k
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
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
0
replies
1.2k
views
SECOND ANNOUNCEMENT: IV International Course on Microarray Data Analysis
Microarray
Annotation
Normalization
GO
Visualization
Classification
Clustering
Survival
GO
16.3 years ago
Ana Conesa
▴ 340
0
votes
1
reply
3.3k
views
undefined columns selected error when using bagging{ipred}
Survival
Survival
updated 11.7 years ago by
Valerie Obenchain
★ 6.8k • written 11.7 years ago by
Guest User
★ 13k
0
votes
8
replies
2.0k
views
AnnBuilder and Kegg
Pathways
GO
Survival
Cancer
Organism
annotate
affydata
vsn
AnnBuilder
globaltest
GO
vsn
updated 17.5 years ago by
David Lapointe
▴ 190 • written 17.5 years ago by
John Zhang
★ 2.9k
0
votes
1
reply
1.3k
views
Job Posting in Biostatistics/Statistics
Bayesian
Survival
Cancer
PROcess
ASSET
Bayesian
Survival
Cancer
PROcess
ASSET
updated 21.4 years ago by
Johannes Hüsing
▴ 80 • written 21.4 years ago by
Janusz Kawczak
▴ 10
0
votes
0
replies
729
views
Off topic: predoctoral grant
Regression
Survival
Cancer
Regression
Survival
Cancer
20.6 years ago
Ramon Diaz
★ 1.1k
0
votes
1
reply
725
views
just.gcrma and gcrma
Survival
Cancer
Lung
Survival
Cancer
Lung
updated 20.0 years ago by
James W. MacDonald
65k • written 20.0 years ago by
Oosting, J. PATH
▴ 550
0
votes
1
reply
920
views
New package
Survival
Survival
19.9 years ago
Jeff Gentry
★ 3.9k
0
votes
0
replies
891
views
SAM - survival analysis
Survival
Survival
19.8 years ago
Holger Schwender
▴ 900
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
0
votes
0
replies
791
views
how to check reference quality?
Microarray
Preprocessing
Survival
limma
Microarray
Preprocessing
Survival
limma
19.3 years ago
Silvano Piazza
▴ 50
0
votes
0
replies
1.1k
views
globaltest procedure
Pathways
Survival
globaltest
Pathways
Survival
globaltest
19.2 years ago
Goeman, J.J. MSTAT
▴ 150
0
votes
3
replies
838
views
multtest dependencies
Survival
genefilter
multtest
reposTools
Survival
genefilter
multtest
reposTools
19.1 years ago
Francois Pepin
★ 1.3k
0
votes
0
replies
860
views
question about multtest v.1.5.2
Survival
genefilter
multtest
reposTools
Survival
genefilter
multtest
reposTools
19.1 years ago
ivan.borozan@utoronto.ca
▴ 80
0
votes
0
replies
1.1k
views
New CRAN package `coin'
Survival
Survival
18.9 years ago
Torsten Hothorn
▴ 30
0
votes
6
replies
1.4k
views
Many missing GO terms from GOHyperG call using mgu74av2
GO
Survival
hgu95av2
mgu74av2
Ruuid
annotate
multtest
affy
graph
annaffy
RBGL
GOstats
updated 18.9 years ago by
Seth Falcon
★ 7.4k • written 18.9 years ago by
Dick Beyer
★ 1.4k
0
votes
0
replies
849
views
studentship till January 2007
Microarray
Survival
Cancer
Microarray
Survival
Cancer
18.7 years ago
Ramon Diaz
★ 1.1k
0
votes
1
reply
2.8k
views
Displaying multiple survival curves on one graph
Survival
graph
Survival
graph
updated 18.4 years ago by
Seth Falcon
★ 7.4k • written 18.4 years ago by
Rifat Hamoudi
▴ 30
0
votes
1
reply
4.2k
views
R package Installation Errors
Survival
Biobase
affy
Survival
Biobase
affy
updated 18.3 years ago by
Martin Morgan
25k • written 18.3 years ago by
Zhang, Jacob Zhongfa
▴ 60
0
votes
2
replies
1.1k
views
justRMA using incorrect default cdf
GO
Survival
rat2302
cdf
annotate
genefilter
affy
limma
affycoretools
GO
Survival
cdf
18.3 years ago
Kimpel, Mark W
▴ 890
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 18.1 years ago by
Ken Simpson
▴ 70 • written 18.1 years ago by
Jenny Drnevich
★ 2.2k
0
votes
2
replies
838
views
subset eset by row broken
Survival
rgu34a
multtest
affy
Survival
rgu34a
multtest
affy
18.0 years ago
Kimpel, Mark W
▴ 890
0
votes
0
replies
1.1k
views
[SPAM?] Bioconductor Digest, Vol 41, Issue 22 (Out of Office)
SNP
Microarray
Annotation
GO
Network
Clustering
Survival
Cancer
hgu133a
cdf
probe
affy
17.8 years ago
Todd Nick
▴ 10
0
votes
1
reply
1.1k
views
Newbie 'rflowcyt' question; problem loading facscan256.fcs
Survival
Infrastructure
Cancer
hexbin
prada
rfcdmin
rflowcyt
Survival
Infrastructure
updated 17.9 years ago by
Seth Falcon
★ 7.4k • written 17.9 years ago by
Ulrik Stervbo
▴ 80
0
votes
0
replies
725
views
error in simpleaffy qc: I'm sorry, I do not know about chip type: poplarcdf
Survival
cdf
genefilter
affy
simpleaffy
Survival
cdf
genefilter
affy
simpleaffy
17.8 years ago
Levi Waldron
▴ 30
0
votes
0
replies
2.2k
views
Prestigious Research Fellowship in Biostatistics/Bioinformatics
Microarray
Survival
Infrastructure
Cancer
Breast
bridge
Microarray
Survival
Infrastructure
19.9 years ago
Wei, Wenbin
▴ 50
0
votes
1
reply
878
views
qc
Survival
Biobase
genefilter
affy
affydata
affyPLM
simpleaffy
affyio
Survival
Biobase
updated 17.7 years ago by
James W. MacDonald
65k • written 17.7 years ago by
Per.Broberg@astrazeneca.com
▴ 10
0
votes
3
replies
2.0k
views
Situation of the legend in the plotPCA of the affycoretools library
GO
Survival
cdf
annotate
genefilter
multtest
affy
graph
limma
RBGL
GOstats
Category
GO
updated 17.6 years ago by
James W. MacDonald
65k • written 17.6 years ago by
Jordi Altirriba Gutiérrez
▴ 350
0
votes
0
replies
795
views
SAM with censored survival data on exprSet
Survival
siggenes
Survival
siggenes
17.6 years ago
mpg33@drexel.edu
▴ 90
0
votes
2
replies
778
views
A question on GO annotations
Survival
Survival
updated 17.6 years ago by
Oosting, J. PATH
▴ 550 • written 17.6 years ago by
Narinder Singh Sahni
▴ 50
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
1
reply
1.2k
views
warning from make.cdf.package - FYI
GO
Survival
cdf
Biobase
annotate
genefilter
graph
makecdfenv
limma
gcrma
matchprobes
GO
updated 17.5 years ago by
James W. MacDonald
65k • written 17.5 years ago by
Jenny Drnevich
★ 2.2k
0
votes
0
replies
1.0k
views
help with RankProd plaase
GO
Survival
cdf
genefilter
multtest
affy
limma
RankProd
Category
affycoretools
GO
cdf
17.5 years ago
Kimpel, Mark W
▴ 890
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
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
2
replies
1.0k
views
2fold sigchanges from limma
GO
Survival
hgu133a2
annotate
hexbin
limma
gcrma
matchprobes
annaffy
GO
Survival
hexbin
updated 17.4 years ago by
Gordon Smyth
50k • written 17.4 years ago by
Ivan Baxter
▴ 60
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
1
reply
1.5k
views
simpleaffy segmentation fault
Survival
probe
genefilter
affy
affyio
Survival
probe
genefilter
affy
affyio
updated 9.0 years ago by
vlagani
• 0 • written 17.3 years ago by
Sucheta Tripathy
▴ 170
0
votes
1
reply
1.8k
views
using simpleaffy incorrectly, or is there a problem with the read.affy function?
Microarray
Survival
Cancer
genefilter
affy
simpleaffy
affyio
Microarray
Survival
Cancer
17.3 years ago
k. brand
▴ 420
0
votes
1
reply
1.2k
views
annaffy errors
GO
Survival
mgu74av2
cdf
annotate
affy
limma
gcrma
matchprobes
annaffy
simpleaffy
plier
updated 17.3 years ago by
James W. MacDonald
65k • written 17.3 years ago by
Ido M. Tamir
▴ 320
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
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
1
reply
964
views
Normalization in davidTiling demo
Normalization
GO
Survival
genefilter
geneplotter
affy
vsn
tilingArray
affyio
GO
Survival
updated 17.2 years ago by
Wolfgang Huber
★ 13k • written 17.2 years ago by
Julian Gehring
★ 1.3k
0
votes
0
replies
1.8k
views
how to convert a AffyBatch into ExpressionSet object ?
Annotation
GO
Survival
ExperimentData
cdf
DynDoc
genefilter
geneplotter
multtest
affy
GO
16.7 years ago
Min Wook Kim
▴ 20
50 results • Page
1 of 1
Recent ...
Replies
Answer: Once again a "Model matrix not full rank"
by
swbarnes2
★ 1.3k
Replicate numbers, like the 1 in control_1 are fine in sample names, but never add them to anything else in colData. From the computer's p…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
Gordon Smyth
50k
I'll add a little bit of general advice to James' answer. You seem to have the misunderstanding that you can change the design matrix but …
Answer: package goseq seems to be not available on the latest version of R
by
Gordon Smyth
50k
It is true that goseq isn't available for Bioc 3.19. That is because goseq depends on txbmaker, which is itself not yet available for Bioc…
Answer: limma Intercept vs No-intercept models completely changing DMR results?
by
James W. MacDonald
65k
This part: ``` design_intercept <- model.matrix(~Alt+Sex+Age+PC1, data=targets_Sherpa) colnames(design_intercept) <- c("AltSHP_LA","Al…
Comment: CombineArrays for EPIC and EPIC V2
by
Kim
• 0
Thank you Tim, this is a great help in getting me started!
Votes
Answer: limma Intercept vs No-intercept models completely changing DMR results?
Answer: CombineArrays for EPIC and EPIC V2
Answer: Too many significant genes when integrating gtex and tcga
Comment: Too many significant genes when integrating gtex and tcga
A: Print Differentially Expressed Exons From Dexseq Results
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