Showing : maanova • reset
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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
8.0 years ago • updated 5.5 years ago Gordon Smyth 43k
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multicore version of maanova
maanova maanova
7.7 years ago Guest User ★ 12k
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R / Maanova: contrasts for interaction in model with 2 fixed factors
maanova maanova
9.1 years ago V. Oostra ▴ 30
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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
9.4 years ago James W. MacDonald 57k
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1
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736
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CRAN packages maintained by you
hexbin gpls RBGL impute Icens hopach maanova RLMM CORREP cycle hexbin gpls RBGL Icens
updated 9.6 years ago by ▴ 430 • written 9.6 years ago by ▴ 10
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439
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R/BioC/Mac keeps going and going
maanova maanova
11.2 years ago Loren Engrav ★ 1.0k
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[MAANOVA] Contrasts for interaction levels - possible?
maanova maanova
11.2 years ago Maciej Jończyk ▴ 720
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3
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783
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[MAANOVA] Warnings in fitmaanova & information request
maanova oligo maanova oligo
11.3 years ago Maciej Jończyk ▴ 720
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646
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Loop design - biological, technical replication
limma maanova limma maanova
11.3 years ago Maciej Jończyk ▴ 720
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777
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manova contrast.matrix
maanova maanova
11.5 years ago David ▴ 860
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467
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To bioinformatics and maanova expert
PROcess maanova PROcess maanova
12.0 years ago Loren Engrav ★ 1.0k
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531
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Ignore maanova warning messages?
maanova maanova
12.0 years ago Loren Engrav ★ 1.0k
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3
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559
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Warning serious?
maanova maanova
updated 12.0 years ago by ▴ 130 • written 12.0 years ago by ★ 1.0k
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483
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What does maanova contrast?
maanova maanova
12.0 years ago Loren Engrav ★ 1.0k
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2
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503
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Filter before? Filter after? With maanova
Regression probe maanova Regression probe maanova
updated 12.0 years ago by ★ 5.5k • written 12.0 years ago by ★ 1.0k
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502
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Commands with maanova
Regression maanova Regression maanova
12.0 years ago Loren Engrav ★ 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 12.1 years ago by 57k • written 12.1 years ago by ▴ 320
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2
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1.7k
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Yet another nested design in limma
affy limma siggenes factDesign maanova affy limma siggenes factDesign maanova
updated 12.1 years ago by ▴ 320 • written 12.1 years ago by 43k
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Yet another nested design in limma
affy limma siggenes factDesign maanova affy limma siggenes factDesign maanova
12.1 years ago Paolo Innocenti ▴ 320
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1
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605
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No degree of freedom in maanova
maanova maanova
12.3 years ago Marcelo Laia ▴ 440
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600
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error with get(getOption("device")) in maanova with R 2.8.0
GO maanova GO maanova
12.6 years ago Wolfgang Huber 13k
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1
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726
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error with get(getOption("device")) in maanova with R 2.8.0
Kidney maanova Kidney maanova
updated 12.6 years ago by 13k • written 12.6 years ago by ▴ 20
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2
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561
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Does old workspace work?
Regression probe gcrma PROcess maanova Regression probe gcrma PROcess maanova
updated 12.6 years ago by 6.5k • written 12.6 years ago by ★ 1.0k
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2
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Maanova & createdata
Regression maanova Regression maanova
updated 12.6 years ago by ▴ 440 • written 12.6 years ago by ★ 1.0k
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598
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F tests of covariates in maanova
maanova maanova
12.8 years ago Kristen K Dang ▴ 50
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2
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671
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GO over representation analysis
Annotation Pathways GO Organism db0 AnnBuilder PROcess maanova AnnotationDbi Annotation
updated 12.8 years ago by ▴ 220 • written 12.8 years ago by ★ 7.2k
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9
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1.0k
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GO over representation analysis
Annotation GO maanova Annotation GO maanova
updated 12.8 years ago by ★ 7.2k • written 12.8 years ago by ▴ 310
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1
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555
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How to extract log ratios from two color arrays
GO hgu133a maanova GO hgu133a maanova
12.8 years ago Heike Pospisil ▴ 310
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403
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Microarray analysis question
Microarray Normalization affy limma convert maanova Microarray Normalization affy limma
13.0 years ago Naomi Altman ★ 6.0k
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1
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579
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MAANOVA - how to collapse replicate spots
Genetics maanova Genetics maanova
updated 13.2 years ago by ▴ 440 • written 13.2 years ago by ▴ 110
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609
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[SOLVED] Factorial experiment: No degree of freedom in maanova
maanova maanova
13.3 years ago Marcelo Laia ▴ 440
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3
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608
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Factorial experiment: No degree of freedom in maanova
maanova maanova
updated 13.3 years ago by ▴ 440 • written 13.3 years ago by ★ 6.0k
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490
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Factorial experiment: No degree of freedom in maanova
maanova maanova
13.4 years ago Marcelo Laia ▴ 440
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417
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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
13.4 years ago Naomi Altman ★ 6.0k
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1
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554
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error in maanova matest() with affymetrix
cdf affy maanova affyio cdf affy maanova affyio
updated 13.9 years ago by 57k • written 13.9 years ago by ▴ 510
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1
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Needed help on maanova fitmaanova function
affy vsn limma maanova affyio affy vsn limma maanova affyio
13.9 years ago Marcelo Laia ▴ 440
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0
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392
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MAANOVA help
maanova maanova
13.9 years ago Alessandro Fazio ▴ 70
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1
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440
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Options for spatial normalization?
Normalization maanova Normalization maanova
updated 14.3 years ago by ▴ 80 • written 14.3 years ago by ▴ 30
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limma vs. maanova for expirement with both contrasts and continuous variables
limma maanova BAC limma maanova BAC
14.4 years ago Gordon Smyth 43k
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481
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maanova: missing observations in cov/cor
maanova maanova
14.8 years ago Matthew Vaughn ▴ 30
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4
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915
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valcano plot x-values
maanova maanova
updated 15.3 years ago by 57k • written 15.3 years ago by ▴ 220
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1
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936
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adjPval and qvalue
qvalue maanova qvalue maanova
updated 15.3 years ago by 57k • written 15.3 years ago by ▴ 220
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1
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400
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diagnostics
Genetics limma maanova Genetics limma maanova
15.4 years ago alex lam RI ▴ 310
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770
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affymetrix in maanova, code
qvalue maanova qvalue maanova
15.5 years ago Morten ▴ 300
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4
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569
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Using MAANOVA functions
Microarray maanova Microarray maanova
updated 15.5 years ago by ▴ 20 • written 15.5 years ago by ▴ 10
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729
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R/maanova
Microarray affy limma maanova Microarray affy limma maanova
15.5 years ago Gary Churchill ▴ 10
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3
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745
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Limma vs Maanova, and use of covariates
limma maanova limma maanova
15.6 years ago • updated 15.5 years ago Ingunn Berget ▴ 150
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1
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901
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limma(B) and maanova(La.svd) questions
limma maanova limma maanova
15.7 years ago Aurélie Laugraud ▴ 20
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473
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maanova error
maanova maanova
15.8 years ago Georg Otto ▴ 510
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0
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502
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limma_design_matrix.
maanova maanova
17.0 years ago Gordon Smyth 43k
50 results • Page 1 of 1
Recent ...
Replies
Comment: lmFit, continuous exposure, adjustment covariates by AyHi • 0
Dear Gordon, Thank you so much for your reply. It worked well! I just changed y to t because the protein values were included in dat in my…
Answer: To retrieve the transcript from gff file with the longest isoform by James W. MacDonald 57k
Neither biomartr, nor orthologr are Bioconductor packages, so this isn't the place to ask questions about them. However, the question yo…
Comment: Data input for aracne2regulon function in viper package by Mikael • 0
Hi Luna_P, I think I am in a very similar situation. I get the same error message and modified my network file as mentioned above but I s…
Comment: change text size in plotmd functtion by Gordon Smyth 43k
plotMD accepts the usual range of R graphics parameters, see `?par`.
Comment: Error in SingleR, no common genes between 'test' and 'ref' by Imtiaz • 0
Thank you for your comment. I tried to change gene symbol to Ensembl gene ID applying this command: rownames(pbmc.sce) <- uniquifyFea…
Votes
A: How to use GenomicRanges to find overlaps by percentage covered of interval
A: How to use GenomicRanges to find overlaps by percentage covered of interval
How to use GenomicRanges to find overlaps by percentage covered of interval
Answer: lmFit, continuous exposure, adjustment covariates
Answer: lmFit, continuous exposure, adjustment covariates
Awards • All
Teacher to Guido Hooiveld ★ 3.0k
Scholar to Gordon Smyth 43k
Scholar to Michael Love 33k
Scholar to Robert Castelo ★ 2.7k
Scholar to James W. MacDonald 57k
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