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maanova
•
reset
0
votes
5
replies
3.9k
views
Statistical power of limma vs mixed model approach to analyze microarray and differentialproteomics/peptidomics experiments and Poisson/binomial mixe…
limma
maanova
rnaseq
9.6 years ago • updated 13 months ago
Gordon Smyth
47k
0
votes
0
replies
639
views
multicore version of maanova
maanova
maanova
9.3 years ago
Guest User
★ 12k
0
votes
0
replies
1.5k
views
R / Maanova: contrasts for interaction in model with 2 fixed factors
maanova
maanova
10.7 years ago
V. Oostra
▴ 30
0
votes
0
replies
541
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
11.0 years ago
James W. MacDonald
62k
0
votes
1
reply
973
views
CRAN packages maintained by you
hexbin
gpls
RBGL
impute
Icens
hopach
maanova
RLMM
CORREP
cycle
hexbin
gpls
RBGL
Icens
updated 11.2 years ago by
Nicholas Lewin-Koh
▴ 430 • written 11.2 years ago by
Kurt Hornik
▴ 10
0
votes
0
replies
566
views
R/BioC/Mac keeps going and going
maanova
maanova
12.8 years ago
Loren Engrav
★ 1.0k
0
votes
0
replies
723
views
[MAANOVA] Contrasts for interaction levels - possible?
maanova
maanova
12.8 years ago
Maciej Jończyk
▴ 720
0
votes
3
replies
1.2k
views
[MAANOVA] Warnings in fitmaanova & information request
maanova
oligo
maanova
oligo
12.9 years ago
Maciej Jończyk
▴ 720
0
votes
0
replies
800
views
Loop design - biological, technical replication
limma
maanova
limma
maanova
12.9 years ago
Maciej Jończyk
▴ 720
0
votes
0
replies
956
views
manova contrast.matrix
maanova
maanova
13.1 years ago
David
▴ 860
0
votes
0
replies
595
views
To bioinformatics and maanova expert
PROcess
maanova
PROcess
maanova
13.5 years ago
Loren Engrav
★ 1.0k
0
votes
0
replies
656
views
Ignore maanova warning messages?
maanova
maanova
13.6 years ago
Loren Engrav
★ 1.0k
0
votes
3
replies
744
views
Warning serious?
maanova
maanova
updated 13.6 years ago by
Juan Pedro Steibel
▴ 130 • written 13.6 years ago by
Loren Engrav
★ 1.0k
0
votes
0
replies
625
views
What does maanova contrast?
maanova
maanova
13.6 years ago
Loren Engrav
★ 1.0k
0
votes
2
replies
684
views
Filter before? Filter after? With maanova
Regression
probe
maanova
Regression
probe
maanova
updated 13.6 years ago by
rgentleman
★ 5.5k • written 13.6 years ago by
Loren Engrav
★ 1.0k
0
votes
0
replies
646
views
Commands with maanova
Regression
maanova
Regression
maanova
13.6 years ago
Loren Engrav
★ 1.0k
0
votes
2
replies
2.6k
views
Random effects and variance components (was: Yet another nested design in limma)
affy
limma
siggenes
factDesign
maanova
affy
limma
siggenes
factDesign
maanova
updated 13.7 years ago by
James W. MacDonald
62k • written 13.7 years ago by
Paolo Innocenti
▴ 320
0
votes
2
replies
2.3k
views
Yet another nested design in limma
affy
limma
siggenes
factDesign
maanova
affy
limma
siggenes
factDesign
maanova
updated 13.7 years ago by
Paolo Innocenti
▴ 320 • written 13.7 years ago by
Gordon Smyth
47k
0
votes
0
replies
868
views
Yet another nested design in limma
affy
limma
siggenes
factDesign
maanova
affy
limma
siggenes
factDesign
maanova
13.7 years ago
Paolo Innocenti
▴ 320
0
votes
1
reply
821
views
No degree of freedom in maanova
maanova
maanova
13.9 years ago
Marcelo Laia
▴ 450
0
votes
0
replies
760
views
error with get(getOption("device")) in maanova with R 2.8.0
GO
maanova
GO
maanova
14.2 years ago
Wolfgang Huber
13k
0
votes
1
reply
1.1k
views
error with get(getOption("device")) in maanova with R 2.8.0
Kidney
maanova
Kidney
maanova
updated 14.2 years ago by
Wolfgang Huber
13k • written 14.2 years ago by
Rob Tempelman
▴ 20
0
votes
2
replies
709
views
Does old workspace work?
Regression
probe
gcrma
PROcess
maanova
Regression
probe
gcrma
PROcess
maanova
updated 14.2 years ago by
Kasper Daniel Hansen
6.5k • written 14.2 years ago by
Loren Engrav
★ 1.0k
0
votes
2
replies
818
views
Maanova & createdata
Regression
maanova
Regression
maanova
updated 14.2 years ago by
Marcelo Laia
▴ 450 • written 14.2 years ago by
Loren Engrav
★ 1.0k
0
votes
0
replies
801
views
F tests of covariates in maanova
maanova
maanova
14.4 years ago
Kristen K Dang
▴ 50
0
votes
2
replies
987
views
GO over representation analysis
Annotation
Pathways
GO
Organism
db0
AnnBuilder
PROcess
maanova
AnnotationDbi
Annotation
updated 14.4 years ago by
Kort, Eric
▴ 220 • written 14.4 years ago by
Marc Carlson
★ 7.2k
0
votes
9
replies
1.3k
views
GO over representation analysis
Annotation
GO
maanova
Annotation
GO
maanova
updated 14.4 years ago by
Marc Carlson
★ 7.2k • written 14.4 years ago by
Heike Pospisil
▴ 310
0
votes
1
reply
707
views
How to extract log ratios from two color arrays
GO
hgu133a
maanova
GO
hgu133a
maanova
14.4 years ago
Heike Pospisil
▴ 310
0
votes
0
replies
518
views
Microarray analysis question
Microarray
Normalization
affy
limma
convert
maanova
Microarray
Normalization
affy
limma
14.6 years ago
Naomi Altman
★ 6.0k
0
votes
1
reply
752
views
MAANOVA - how to collapse replicate spots
Genetics
maanova
Genetics
maanova
updated 14.8 years ago by
Marcelo Laia
▴ 450 • written 14.8 years ago by
Cecilia McGregor
▴ 110
0
votes
0
replies
741
views
[SOLVED] Factorial experiment: No degree of freedom in maanova
maanova
maanova
14.9 years ago
Marcelo Laia
▴ 450
0
votes
3
replies
799
views
Factorial experiment: No degree of freedom in maanova
maanova
maanova
updated 14.9 years ago by
Marcelo Laia
▴ 450 • written 14.9 years ago by
Naomi Altman
★ 6.0k
0
votes
0
replies
614
views
Factorial experiment: No degree of freedom in maanova
maanova
maanova
14.9 years ago
Marcelo Laia
▴ 450
0
votes
0
replies
636
views
2 conditions time series with different number of sample at each time point
TimeCourse
limma
timecourse
maanova
TimeCourse
limma
timecourse
maanova
15.0 years ago
Naomi Altman
★ 6.0k
0
votes
1
reply
730
views
error in maanova matest() with affymetrix
cdf
affy
maanova
affyio
cdf
affy
maanova
affyio
updated 15.4 years ago by
James W. MacDonald
62k • written 15.4 years ago by
Georg Otto
▴ 510
0
votes
1
reply
723
views
Needed help on maanova fitmaanova function
affy
vsn
limma
maanova
affyio
affy
vsn
limma
maanova
affyio
15.5 years ago
Marcelo Laia
▴ 450
0
votes
0
replies
506
views
MAANOVA help
maanova
maanova
15.5 years ago
Alessandro Fazio
▴ 70
0
votes
1
reply
658
views
Options for spatial normalization?
Normalization
maanova
Normalization
maanova
updated 15.9 years ago by
Jay Konieczka
▴ 80 • written 15.9 years ago by
Oliver R. Homann
▴ 30
0
votes
0
replies
867
views
limma vs. maanova for expirement with both contrasts and continuous variables
limma
maanova
BAC
limma
maanova
BAC
16.0 years ago
Gordon Smyth
47k
0
votes
0
replies
629
views
maanova: missing observations in cov/cor
maanova
maanova
16.4 years ago
Matthew Vaughn
▴ 30
0
votes
4
replies
1.1k
views
valcano plot x-values
maanova
maanova
updated 16.9 years ago by
James W. MacDonald
62k • written 16.9 years ago by
sabrina.shao
▴ 220
1
vote
1
reply
1.2k
views
adjPval and qvalue
qvalue
maanova
qvalue
maanova
updated 16.9 years ago by
James W. MacDonald
62k • written 16.9 years ago by
sabrina.shao
▴ 220
0
votes
1
reply
578
views
diagnostics
Genetics
limma
maanova
Genetics
limma
maanova
17.0 years ago
alex lam RI
▴ 310
0
votes
0
replies
965
views
affymetrix in maanova, code
qvalue
maanova
qvalue
maanova
17.1 years ago
Morten
▴ 300
0
votes
4
replies
780
views
Using MAANOVA functions
Microarray
maanova
Microarray
maanova
updated 17.1 years ago by
Xiangqin Cui
▴ 20 • written 17.1 years ago by
Heather Maughan
▴ 10
0
votes
0
replies
888
views
R/maanova
Microarray
affy
limma
maanova
Microarray
affy
limma
maanova
17.1 years ago
Gary Churchill
▴ 10
0
votes
3
replies
1.0k
views
Limma vs Maanova, and use of covariates
limma
maanova
limma
maanova
17.1 years ago
Ingunn Berget
▴ 150
0
votes
1
reply
1.1k
views
limma(B) and maanova(La.svd) questions
limma
maanova
limma
maanova
17.3 years ago
Aurélie Laugraud
▴ 20
0
votes
0
replies
582
views
maanova error
maanova
maanova
17.4 years ago
Georg Otto
▴ 510
0
votes
0
replies
613
views
limma_design_matrix.
maanova
maanova
18.6 years ago
Gordon Smyth
47k
50 results • Page
1 of 1
Recent ...
Replies
Comment: transcript name mapping between human and mouse
by
Eric
• 0
It works very well, and thanks for such a great answer! Because I use the old version gtf from GENECODE (vM12), the id version does not mat…
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
by
Bernardo
• 0
Just did that, thank you for the suggestion.
Comment: Empty ChipQC Report
by
Okan
• 0
Hi, I have the same issue. Have you found any solution or any reason why this is happening?
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
Gordon Smyth
47k
Am I understanding correctly that you have 24 RNA-seq libraries in total, 6 from the pooled samples and 18 from regular samples with biolog…
Comment: edgeR: Usage of estimated dispersion from replicates for pools of the same exper
by
k.roelfs
• 0
I'm sorry, I know it is kinda confusing... We have 6 pools in total: Phenotype A: T1a, T2, T1b, T1c Phenotype B: T1, T2 Each pool consist…
Votes
Answer: transcript name mapping between human and mouse
Comment: How to normalize long-read RNA-seq data for comparison with short-reads
Volcano Plot in R
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
Answer: Replicating iDEP parameters in DESeq2; two conditions and an interaction term.
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