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0
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replies
814
views
RE: AffyPLM
Cancer
Cancer
21.9 years ago
Mark Reimers
▴ 70
0
votes
0
replies
866
views
RMA false positive rate
21.9 years ago
Matthew Hannah
▴ 940
0
votes
1
reply
982
views
nature review article
updated 21.9 years ago by
Rafael A. Irizarry
★ 2.3k • written 21.9 years ago by
Isaac Mehl
▴ 60
0
votes
0
replies
784
views
Selection of quantitative differences b/w two M vs A plots after rma
affy
affy
21.9 years ago
Anthony Bosco
▴ 500
0
votes
0
replies
885
views
normalization data with ..txt or ..xls file by marray or limma
Microarray
Normalization
limma
marray
Microarray
Normalization
limma
marray
21.9 years ago
rwin qian
▴ 50
0
votes
2
replies
1.3k
views
cDNA microarray Questions
Microarray
Microarray
updated 21.9 years ago by
Naomi Altman
★ 6.0k • written 21.9 years ago by
michael watson IAH-C
★ 3.4k
0
votes
4
replies
2.7k
views
RMA and quantile normalisation
probe
probe
updated 21.9 years ago by
Francois Collin
▴ 50 • written 21.9 years ago by
Arne.Muller@aventis.com
▴ 620
1
vote
1
reply
1.7k
views
Limma and missing data
limma
limma
updated 21.9 years ago by
Matthew Ritchie
▴ 1000 • written 21.9 years ago by
Sean Davis
21k
0
votes
3
replies
1.2k
views
How to modify an Affybatch object?
21.9 years ago
Puhong Gao
▴ 140
0
votes
0
replies
458
views
p-values
Microarray
Microarray
21.9 years ago
Renate van Dorp
▴ 10
0
votes
0
replies
702
views
An ESR essay about software design, and how it applies to Bioconductor
21.9 years ago
Wolfgang Huber
★ 13k
0
votes
0
replies
1.3k
views
AffyPLM
affyPLM
affyPLM
21.9 years ago
Arne.Muller@aventis.com
▴ 620
0
votes
0
replies
1.1k
views
Statistical comparison of low replicate affy data
limma
gcrma
limma
gcrma
21.9 years ago
Naomi Altman
★ 6.0k
0
votes
0
replies
644
views
problem with ttestFun
21.9 years ago
Naomi Altman
★ 6.0k
0
votes
0
replies
796
views
Intensity distribution of "significant genes"
affy
affy
21.9 years ago
Naomi Altman
★ 6.0k
0
votes
3
replies
1.4k
views
cDNA microarray Questions
Microarray
Normalization
Microarray
Normalization
updated 21.9 years ago by
Naomi Altman
★ 6.0k • written 21.9 years ago by
rwin qian
▴ 50
0
votes
0
replies
1.1k
views
Quantile Normalization on mice data
Normalization
Clustering
probe
affyPLM
Normalization
Clustering
probe
affyPLM
21.9 years ago
Arne.Muller@aventis.com
▴ 620
0
votes
0
replies
2.9k
views
limma design matrix
GO
limma
PROcess
weaver
GO
limma
PROcess
weaver
21.9 years ago
Gordon Smyth
53k
0
votes
0
replies
1.3k
views
Re: LimmaGUI
Genetics
limma
limmaGUI
Genetics
limma
limmaGUI
21.9 years ago
James Wettenhall
▴ 1000
0
votes
1
reply
955
views
installing affy devel package
GO
affy
convert
GO
affy
convert
21.9 years ago
Ben Bolstad
★ 1.1k
0
votes
0
replies
972
views
installing affy devel package
GO
affy
convert
GO
affy
convert
21.9 years ago
Isaac Mehl
▴ 60
0
votes
3
replies
1.8k
views
Recent changes to Bioconductor packages
reposTools
graph
Rgraphviz
simpleaffy
impute
reposTools
graph
Rgraphviz
simpleaffy
impute
21.9 years ago
madman@jimmy.harvard.edu
▴ 850
0
votes
1
reply
859
views
limma package and related replicate genes problems
limma
PROcess
limma
PROcess
updated 21.9 years ago by
Matthew Ritchie
▴ 1000 • written 21.9 years ago by
p hu
▴ 20
0
votes
0
replies
1.0k
views
Re: Evaluate correlation beween biological replicates
21.9 years ago
Hua Weng
▴ 60
0
votes
0
replies
1.0k
views
limma design matrix
limma
limma
21.9 years ago
michael watson IAH-C
★ 3.4k
0
votes
6
replies
1.8k
views
(no subject)
marray
marray
updated 21.9 years ago by
James W. MacDonald
68k • written 21.9 years ago by
Joyce Gu
▴ 200
0
votes
0
replies
750
views
Error when calculating coverageMat in ontoTools 1.2.1
GO
ontoTools
GO
ontoTools
21.9 years ago
Rohan BH Williams
▴ 10
0
votes
0
replies
833
views
Bioconductor Macintosh Package bundle
21.9 years ago
don simone daly
▴ 10
0
votes
2
replies
914
views
normalization
Microarray
Microarray
21.9 years ago
gjam@daimi.au.dk
▴ 40
0
votes
0
replies
873
views
E.coli CDF (fwd)
cdf
cdf
21.9 years ago
Caroline Johnston
▴ 70
0
votes
4
replies
1.6k
views
error when running marrayNorm
Microarray
Microarray
updated 21.9 years ago by
michael watson IAH-C
★ 3.4k • written 21.9 years ago by
Yihuan Xu
▴ 130
0
votes
1
reply
880
views
Limma Package to read cDNA data
limma
limma
updated 21.9 years ago by
Matthew Ritchie
▴ 1000 • written 21.9 years ago by
Joyce Gu
▴ 200
0
votes
1
reply
949
views
gcrma error
gcrma
gcrma
updated 21.9 years ago by
Rafael A. Irizarry
★ 2.3k • written 21.9 years ago by
Anthony Bosco
▴ 500
0
votes
0
replies
993
views
E.coli CDF
cdf
cdf
21.9 years ago
Ilhem Diboun
▴ 40
0
votes
1
reply
1.2k
views
LimmaGUI
limmaGUI
limmaGUI
updated 21.9 years ago by
James W. MacDonald
68k • written 21.9 years ago by
Binita Dutta
▴ 100
0
votes
0
replies
1.2k
views
affyPLM interpretation
affyPLM
DOSE
affyPLM
DOSE
21.9 years ago
Arne.Muller@aventis.com
▴ 620
0
votes
1
reply
1.3k
views
limma: merging RG list and normalisation
Microarray
limma
Microarray
limma
updated 21.9 years ago by
Gordon Smyth
53k • written 21.9 years ago by
Christopher Wilkinson
▴ 140
0
votes
7
replies
1.9k
views
M vs A plot
Microarray
Normalization
Regression
Cancer
marray
Microarray
Normalization
Regression
updated 21.9 years ago by
Naomi Altman
★ 6.0k • written 21.9 years ago by
Richard Friedman
★ 2.0k
0
votes
12
replies
4.7k
views
testing GO categories with Fisher's exact test.
GO
Category
GO
Category
updated 21.9 years ago by
James W. MacDonald
68k • written 21.9 years ago by
Nicholas Lewin-Koh
▴ 430
0
votes
1
reply
1.7k
views
Reading data from SMD database
marray
marray
updated 21.9 years ago by
Aedin Culhane
▴ 310 • written 21.9 years ago by
Colin A. Smith
▴ 220
0
votes
3
replies
1.7k
views
Questions about multtest
multtest
multtest
updated 21.9 years ago by
Oosting, J. PATH
▴ 550 • written 21.9 years ago by
michael watson IAH-C
★ 3.4k
0
votes
4
replies
1.4k
views
problems with multtest
Annotation
multtest
Annotation
multtest
updated 21.9 years ago by
James W. MacDonald
68k • written 21.9 years ago by
michael watson IAH-C
★ 3.4k
0
votes
1
reply
987
views
rma or svn?
updated 21.9 years ago by
Rafael A. Irizarry
★ 2.3k • written 21.9 years ago by
gjam@daimi.au.dk
▴ 40
0
votes
0
replies
673
views
limma
limma
limma
21.9 years ago
Anna Cao
▴ 90
0
votes
0
replies
999
views
Overriding maPrintTip method
BRAIN
BRAIN
21.9 years ago
Kellie J. Archer, Ph.D.
▴ 120
0
votes
1
reply
1.5k
views
problem with LPE
LPE
LPE
updated 21.9 years ago by
Nitin Jain
▴ 30 • written 21.9 years ago by
Phguardiol@aol.com
▴ 720
0
votes
2
replies
833
views
marray or rma?
updated 21.9 years ago by
Adaikalavan Ramasamy
▴ 10 • written 21.9 years ago by
gjam@daimi.au.dk
▴ 40
0
votes
0
replies
1.4k
views
Question about excluding Affymetrix spike controls from normalization
Normalization
Bacillus subtilis
convert
Normalization
Bacillus subtilis
convert
21.9 years ago
Tan, MinHan
▴ 180
0
votes
0
replies
592
views
limma 1.5.1 ok under R 1.8 or R 1.9
limma
limma
21.9 years ago
Gordon Smyth
53k
0
votes
0
replies
807
views
Re: marrayClasses algorithm
21.9 years ago
Jean Yee Hwa Yang
▴ 920
46,719 results • Page
902 of 935
Recent ...
Replies
Comment: Development of MSstat workflow to analyze DIA time series data
by
Gordon Smyth
53k
Are there any other explanatory factors or covariates in your experiment other than time point? Do you have biological replicates at each t…
Answer: Question about the filterByExpr function inputs in edgeR
by
Gordon Smyth
53k
Either of these choices is perfectly acceptable from an edgeR analysis point of view, it is more to do with which is more relevant for your…
Comment: Clarification on counting in Rsubread (featureCounts)
by
Gordon Smyth
53k
Your follow-up question is very much wider than the first, and is essentially a research question rather a software question. As one of the…
Comment: Error in creating BSGenome package
by
Nguyen
• 0
I keep running into this error, please help: ``` Writing all sequences to './BSgenome.Panubis.NCBI.Panubis1.0/inst/extdata/single_sequenc…
Comment: Joining different datasets and analyzing using the group-specific condition effe
by
James W. MacDonald
68k
There is an example of how you can do this in the [DESeq vignette][1]. An alternative would be to fit a linear mixed model using the `vari…
Votes
A: DESeq2: What is the unit of DESeq2 normalized read count (VST)? Is it tag per mi
Answer: Clarification on counting in Rsubread (featureCounts)
Comment: Clarification on counting in Rsubread (featureCounts)
C: ControlGenes/ housekeeping genes Deseq2
Answer: Clarification on counting in Rsubread (featureCounts)
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mohammedtoufiq91
▴ 10
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to
Lluís Revilla Sancho
▴ 760
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James W. MacDonald
68k
Great Question
to
fl
▴ 20
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to
Gordon Smyth
53k
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