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maanova
•
reset
0
votes
5
replies
4.6k
views
Statistical power of limma vs mixed model approach to analyze microarray and differentialproteomics/peptidomics experiments and Poisson/binomial mixe…
limma
maanova
rnaseq
10.9 years ago • updated 2.4 years ago
Gordon Smyth
50k
0
votes
0
replies
817
views
multicore version of maanova
maanova
maanova
10.6 years ago
Guest User
★ 13k
0
votes
0
replies
1.7k
views
R / Maanova: contrasts for interaction in model with 2 fixed factors
maanova
maanova
12.0 years ago
V. Oostra
▴ 30
0
votes
0
replies
700
views
Cross-comparison of independent intensities from different experiments (genepix) (sorry I don\'t know how to describe the problem better)
limma
maanova
limma
maanova
12.3 years ago
James W. MacDonald
65k
0
votes
1
reply
1.3k
views
CRAN packages maintained by you
hexbin
gpls
RBGL
impute
Icens
hopach
maanova
RLMM
CORREP
cycle
hexbin
gpls
RBGL
Icens
updated 12.5 years ago by
Nicholas Lewin-Koh
▴ 430 • written 12.5 years ago by
Kurt Hornik
▴ 10
0
votes
0
replies
742
views
R/BioC/Mac keeps going and going
maanova
maanova
14.1 years ago
Loren Engrav
★ 1.0k
0
votes
0
replies
911
views
[MAANOVA] Contrasts for interaction levels - possible?
maanova
maanova
14.1 years ago
boczniak767
▴ 720
0
votes
3
replies
1.5k
views
[MAANOVA] Warnings in fitmaanova & information request
maanova
oligo
maanova
oligo
14.2 years ago
boczniak767
▴ 720
0
votes
0
replies
993
views
Loop design - biological, technical replication
limma
maanova
limma
maanova
14.2 years ago
boczniak767
▴ 720
0
votes
0
replies
1.2k
views
manova contrast.matrix
maanova
maanova
14.4 years ago
David
▴ 860
0
votes
0
replies
776
views
To bioinformatics and maanova expert
PROcess
maanova
PROcess
maanova
14.8 years ago
Loren Engrav
★ 1.0k
0
votes
0
replies
863
views
Ignore maanova warning messages?
maanova
maanova
14.8 years ago
Loren Engrav
★ 1.0k
0
votes
3
replies
1.0k
views
Warning serious?
maanova
maanova
updated 14.8 years ago by
Juan Pedro Steibel
▴ 130 • written 14.8 years ago by
Loren Engrav
★ 1.0k
0
votes
0
replies
810
views
What does maanova contrast?
maanova
maanova
14.8 years ago
Loren Engrav
★ 1.0k
0
votes
2
replies
912
views
Filter before? Filter after? With maanova
Regression
probe
maanova
Regression
probe
maanova
updated 14.8 years ago by
rgentleman
★ 5.5k • written 14.8 years ago by
Loren Engrav
★ 1.0k
0
votes
0
replies
815
views
Commands with maanova
Regression
maanova
Regression
maanova
14.8 years ago
Loren Engrav
★ 1.0k
0
votes
2
replies
2.9k
views
Random effects and variance components (was: Yet another nested design in limma)
affy
limma
siggenes
factDesign
maanova
affy
limma
siggenes
factDesign
maanova
updated 14.9 years ago by
James W. MacDonald
65k • written 14.9 years ago by
Paolo Innocenti
▴ 320
0
votes
2
replies
2.7k
views
Yet another nested design in limma
affy
limma
siggenes
factDesign
maanova
affy
limma
siggenes
factDesign
maanova
updated 15.0 years ago by
Paolo Innocenti
▴ 320 • written 15.0 years ago by
Gordon Smyth
50k
0
votes
0
replies
1.1k
views
Yet another nested design in limma
affy
limma
siggenes
factDesign
maanova
affy
limma
siggenes
factDesign
maanova
15.0 years ago
Paolo Innocenti
▴ 320
0
votes
1
reply
1.1k
views
No degree of freedom in maanova
maanova
maanova
15.2 years ago
Marcelo Laia
▴ 450
0
votes
0
replies
945
views
error with get(getOption("device")) in maanova with R 2.8.0
GO
maanova
GO
maanova
15.5 years ago
Wolfgang Huber
★ 13k
0
votes
1
reply
1.3k
views
error with get(getOption("device")) in maanova with R 2.8.0
Kidney
maanova
Kidney
maanova
updated 15.5 years ago by
Wolfgang Huber
★ 13k • written 15.5 years ago by
Rob Tempelman
▴ 20
0
votes
2
replies
948
views
Does old workspace work?
Regression
probe
gcrma
PROcess
maanova
Regression
probe
gcrma
PROcess
maanova
updated 15.5 years ago by
Kasper Daniel Hansen
★ 6.5k • written 15.5 years ago by
Loren Engrav
★ 1.0k
0
votes
2
replies
1.1k
views
Maanova & createdata
Regression
maanova
Regression
maanova
updated 15.5 years ago by
Marcelo Laia
▴ 450 • written 15.5 years ago by
Loren Engrav
★ 1.0k
0
votes
0
replies
983
views
F tests of covariates in maanova
maanova
maanova
15.7 years ago
Kristen K Dang
▴ 50
0
votes
2
replies
1.3k
views
GO over representation analysis
Annotation
Pathways
GO
Organism
db0
AnnBuilder
PROcess
maanova
AnnotationDbi
Annotation
updated 15.7 years ago by
Kort, Eric
▴ 220 • written 15.7 years ago by
Marc Carlson
★ 7.2k
0
votes
9
replies
1.7k
views
GO over representation analysis
Annotation
GO
maanova
Annotation
GO
maanova
updated 15.7 years ago by
Marc Carlson
★ 7.2k • written 15.7 years ago by
Heike Pospisil
▴ 310
0
votes
1
reply
908
views
How to extract log ratios from two color arrays
GO
hgu133a
maanova
GO
hgu133a
maanova
15.7 years ago
Heike Pospisil
▴ 310
0
votes
0
replies
754
views
Microarray analysis question
Microarray
Normalization
affy
limma
convert
maanova
Microarray
Normalization
affy
limma
15.9 years ago
Naomi Altman
★ 6.0k
0
votes
1
reply
947
views
MAANOVA - how to collapse replicate spots
Genetics
maanova
Genetics
maanova
updated 16.0 years ago by
Marcelo Laia
▴ 450 • written 16.0 years ago by
Cecilia McGregor
▴ 110
0
votes
0
replies
900
views
[SOLVED] Factorial experiment: No degree of freedom in maanova
maanova
maanova
16.2 years ago
Marcelo Laia
▴ 450
0
votes
3
replies
1.1k
views
Factorial experiment: No degree of freedom in maanova
maanova
maanova
updated 16.2 years ago by
Marcelo Laia
▴ 450 • written 16.2 years ago by
Naomi Altman
★ 6.0k
0
votes
0
replies
779
views
Factorial experiment: No degree of freedom in maanova
maanova
maanova
16.2 years ago
Marcelo Laia
▴ 450
0
votes
0
replies
818
views
2 conditions time series with different number of sample at each time point
TimeCourse
limma
timecourse
maanova
TimeCourse
limma
timecourse
maanova
16.3 years ago
Naomi Altman
★ 6.0k
0
votes
1
reply
978
views
error in maanova matest() with affymetrix
cdf
affy
maanova
affyio
cdf
affy
maanova
affyio
updated 16.7 years ago by
James W. MacDonald
65k • written 16.7 years ago by
Georg Otto
▴ 510
0
votes
1
reply
938
views
Needed help on maanova fitmaanova function
affy
vsn
limma
maanova
affyio
affy
vsn
limma
maanova
affyio
16.8 years ago
Marcelo Laia
▴ 450
0
votes
0
replies
662
views
MAANOVA help
maanova
maanova
16.8 years ago
Alessandro Fazio
▴ 70
0
votes
1
reply
871
views
Options for spatial normalization?
Normalization
maanova
Normalization
maanova
updated 17.2 years ago by
Jay Konieczka
▴ 80 • written 17.2 years ago by
Oliver R. Homann
▴ 30
0
votes
0
replies
1.1k
views
limma vs. maanova for expirement with both contrasts and continuous variables
limma
maanova
BAC
limma
maanova
BAC
17.3 years ago
Gordon Smyth
50k
0
votes
0
replies
776
views
maanova: missing observations in cov/cor
maanova
maanova
17.7 years ago
Matthew Vaughn
▴ 30
0
votes
4
replies
1.4k
views
valcano plot x-values
maanova
maanova
updated 18.1 years ago by
James W. MacDonald
65k • written 18.1 years ago by
sabrina.shao
▴ 220
1
vote
1
reply
1.5k
views
adjPval and qvalue
qvalue
maanova
qvalue
maanova
updated 18.1 years ago by
James W. MacDonald
65k • written 18.1 years ago by
sabrina.shao
▴ 220
0
votes
1
reply
861
views
diagnostics
Genetics
limma
maanova
Genetics
limma
maanova
18.3 years ago
alex lam RI
▴ 310
0
votes
0
replies
1.2k
views
affymetrix in maanova, code
qvalue
maanova
qvalue
maanova
18.4 years ago
Morten
▴ 300
0
votes
4
replies
1.1k
views
Using MAANOVA functions
Microarray
maanova
Microarray
maanova
updated 18.4 years ago by
Xiangqin Cui
▴ 20 • written 18.4 years ago by
Heather Maughan
▴ 10
0
votes
0
replies
1.1k
views
R/maanova
Microarray
affy
limma
maanova
Microarray
affy
limma
maanova
18.4 years ago
Gary Churchill
▴ 10
0
votes
3
replies
1.4k
views
Limma vs Maanova, and use of covariates
limma
maanova
limma
maanova
18.4 years ago
Ingunn Berget
▴ 150
0
votes
1
reply
1.3k
views
limma(B) and maanova(La.svd) questions
limma
maanova
limma
maanova
18.6 years ago
Aurélie Laugraud
▴ 20
0
votes
0
replies
750
views
maanova error
maanova
maanova
18.6 years ago
Georg Otto
▴ 510
0
votes
0
replies
771
views
limma_design_matrix.
maanova
maanova
19.9 years ago
Gordon Smyth
50k
50 results • Page
1 of 1
Recent ...
Replies
Comment: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
by
Hervé Pagès
16k
Indeed. Calculations involving floating point arithmetic are architecture-dependent, and testing the results should be done with `all.equal…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Poonam
• 0
I will follow what you suggested. I didn't use max gap anywhere. I was following statistic I and regarding the size of features, my small…
Comment: How to use bootRanges to bootstrap small RNA loci (nullranges package)
by
Michael Love
41k
Oh I see, for the second question, I don't have a great answer. I typically think of one set as the anchor, whose ascertainment is driving …
Comment: Help with running egsea()
by
James W. MacDonald
65k
Oh, right. Ideally you would use NCBI (aka Entrez gene) IDs because they are way more likely to be unique. Gene symbols are broken down int…
Comment: Help with running egsea()
by
Chris
• 0
Thanks James! I update the question. The last question mean when we use `buildIdx()`, could we use gene symbol instead of entrezID. However…
Votes
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
Comment: Help with running egsea()
Answer: Trim/Filter out-of-bounds GRanges
Comment: Help with running egsea()
Answer: How to save the DEXSeq results
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