Showing : maanova • reset
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multicore version of maanova
maanova maanova
10.6 years ago Guest User ★ 13k
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5
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4.6k
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Statistical power of limma vs mixed model approach to analyze microarray and differentialproteomics/peptidomics experiments and Poisson/binomial mixe…
limma maanova rnaseq
10.8 years ago • updated 2.4 years ago Gordon Smyth 50k
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R / Maanova: contrasts for interaction in model with 2 fixed factors
maanova maanova
12.0 years ago V. Oostra ▴ 30
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698
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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
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1
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1.3k
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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 ▴ 430 • written 12.5 years ago by ▴ 10
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739
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R/BioC/Mac keeps going and going
maanova maanova
14.1 years ago Loren Engrav ★ 1.0k
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910
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[MAANOVA] Contrasts for interaction levels - possible?
maanova maanova
14.1 years ago boczniak767 ▴ 720
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1.5k
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[MAANOVA] Warnings in fitmaanova & information request
maanova oligo maanova oligo
14.2 years ago boczniak767 ▴ 720
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993
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Loop design - biological, technical replication
limma maanova limma maanova
14.2 years ago boczniak767 ▴ 720
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1.2k
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manova contrast.matrix
maanova maanova
14.4 years ago David ▴ 860
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775
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To bioinformatics and maanova expert
PROcess maanova PROcess maanova
14.8 years ago Loren Engrav ★ 1.0k
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862
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Ignore maanova warning messages?
maanova maanova
14.8 years ago Loren Engrav ★ 1.0k
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810
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What does maanova contrast?
maanova maanova
14.8 years ago Loren Engrav ★ 1.0k
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3
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1.0k
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Warning serious?
maanova maanova
updated 14.8 years ago by ▴ 130 • written 14.8 years ago by ★ 1.0k
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815
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Commands with maanova
Regression maanova Regression maanova
14.8 years ago Loren Engrav ★ 1.0k
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909
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Filter before? Filter after? With maanova
Regression probe maanova Regression probe maanova
updated 14.8 years ago by ★ 5.5k • written 14.8 years ago by ★ 1.0k
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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 65k • written 14.9 years ago by ▴ 320
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Yet another nested design in limma
affy limma siggenes factDesign maanova affy limma siggenes factDesign maanova
updated 15.0 years ago by ▴ 320 • written 15.0 years ago by 50k
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Yet another nested design in limma
affy limma siggenes factDesign maanova affy limma siggenes factDesign maanova
15.0 years ago Paolo Innocenti ▴ 320
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1
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1.1k
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No degree of freedom in maanova
maanova maanova
15.2 years ago • updated 15.1 years ago Marcelo Laia ▴ 450
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944
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error with get(getOption("device")) in maanova with R 2.8.0
GO maanova GO maanova
15.5 years ago Wolfgang Huber ★ 13k
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1
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1.3k
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error with get(getOption("device")) in maanova with R 2.8.0
Kidney maanova Kidney maanova
updated 15.5 years ago by ★ 13k • written 15.5 years ago by ▴ 20
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2
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Does old workspace work?
Regression probe gcrma PROcess maanova Regression probe gcrma PROcess maanova
updated 15.5 years ago by ★ 6.5k • written 15.5 years ago by ★ 1.0k
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1.1k
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Maanova & createdata
Regression maanova Regression maanova
updated 15.5 years ago by ▴ 450 • written 15.5 years ago by ★ 1.0k
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981
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F tests of covariates in maanova
maanova maanova
15.7 years ago Kristen K Dang ▴ 50
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2
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1.3k
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GO over representation analysis
Annotation Pathways GO Organism db0 AnnBuilder PROcess maanova AnnotationDbi Annotation
updated 15.7 years ago by ▴ 220 • written 15.7 years ago by ★ 7.2k
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9
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1.7k
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GO over representation analysis
Annotation GO maanova Annotation GO maanova
updated 15.7 years ago by ★ 7.2k • written 15.7 years ago by ▴ 310
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1
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908
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How to extract log ratios from two color arrays
GO hgu133a maanova GO hgu133a maanova
15.7 years ago Heike Pospisil ▴ 310
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Microarray analysis question
Microarray Normalization affy limma convert maanova Microarray Normalization affy limma
15.9 years ago Naomi Altman ★ 6.0k
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1
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946
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MAANOVA - how to collapse replicate spots
Genetics maanova Genetics maanova
updated 16.0 years ago by ▴ 450 • written 16.0 years ago by ▴ 110
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900
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[SOLVED] Factorial experiment: No degree of freedom in maanova
maanova maanova
16.2 years ago Marcelo Laia ▴ 450
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3
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1.1k
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Factorial experiment: No degree of freedom in maanova
maanova maanova
updated 16.2 years ago by ▴ 450 • written 16.2 years ago by ★ 6.0k
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777
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Factorial experiment: No degree of freedom in maanova
maanova maanova
16.2 years ago Marcelo Laia ▴ 450
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0
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818
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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
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1
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976
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error in maanova matest() with affymetrix
cdf affy maanova affyio cdf affy maanova affyio
updated 16.7 years ago by 65k • written 16.7 years ago by ▴ 510
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1
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936
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Needed help on maanova fitmaanova function
affy vsn limma maanova affyio affy vsn limma maanova affyio
16.8 years ago Marcelo Laia ▴ 450
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660
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MAANOVA help
maanova maanova
16.8 years ago Alessandro Fazio ▴ 70
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1
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869
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Options for spatial normalization?
Normalization maanova Normalization maanova
updated 17.2 years ago by ▴ 80 • written 17.2 years ago by ▴ 30
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1.1k
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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
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772
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maanova: missing observations in cov/cor
maanova maanova
17.7 years ago Matthew Vaughn ▴ 30
1
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1
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1.5k
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adjPval and qvalue
qvalue maanova qvalue maanova
updated 18.1 years ago by 65k • written 18.1 years ago by ▴ 220
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4
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1.4k
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valcano plot x-values
maanova maanova
updated 18.1 years ago by 65k • written 18.1 years ago by ▴ 220
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1
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860
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diagnostics
Genetics limma maanova Genetics limma maanova
18.2 years ago alex lam RI ▴ 310
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1.2k
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affymetrix in maanova, code
qvalue maanova qvalue maanova
18.3 years ago Morten ▴ 300
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4
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1.1k
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Using MAANOVA functions
Microarray maanova Microarray maanova
updated 18.4 years ago by ▴ 20 • written 18.4 years ago by ▴ 10
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1.1k
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R/maanova
Microarray affy limma maanova Microarray affy limma maanova
18.4 years ago Gary Churchill ▴ 10
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3
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1.4k
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Limma vs Maanova, and use of covariates
limma maanova limma maanova
18.4 years ago Ingunn Berget ▴ 150
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1
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1.3k
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limma(B) and maanova(La.svd) questions
limma maanova limma maanova
18.6 years ago • updated 18.5 years ago Aurélie Laugraud ▴ 20
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749
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maanova error
maanova maanova
18.6 years ago Georg Otto ▴ 510
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771
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limma_design_matrix.
maanova maanova
19.9 years ago Gordon Smyth 50k
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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