Showing : multtest • reset
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Cross-validation with multiple control subgroups in limma
limma multtest
5 weeks ago • updated 4 weeks ago Ali Barry ▴ 40
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Correcting for multiple comparisons in permutation procedure using multtest
multtest ss.maxT ss.minP sd.maxT
4.7 years ago john.gordon.yellow • 0
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1
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1.0k
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Trouble with multtest
mt.teststat multtest
7.3 years ago dutzr14 • 0
1
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2.1k
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DE analysis of PCR array [was: dataset dim for siggenes]
qPCR Normalization multtest limma siggenes
10.4 years ago • updated 8.0 years ago Gordon Smyth 52k
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1
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1.5k
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Cannot load library multtest; package or namespace load failed
multtest
8.2 years ago Guido Hooiveld ★ 4.1k
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3
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3.0k
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mt.teststat
multtest DECIPHER multtest DECIPHER
updated 9.0 years ago by ▴ 20 • written 21.8 years ago by ▴ 220
1
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1
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1.4k
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Not getting Adjusted p-values from multtest package
multtest methylation adjusted pvalue
updated 9.2 years ago by ▴ 110 • written 9.2 years ago by ▴ 10
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2
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6.2k
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Adjust p-values of a matrix of p-values
multtest
updated 10.2 years ago by 52k • written 10.2 years ago by ▴ 260
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2
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1.4k
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About correlation tests between pairs of genes
multtest
updated 10.2 years ago by ★ 3.8k • written 10.2 years ago by ▴ 260
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1
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1.6k
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prefiltering genelist before LIMMA & cut-off paramter for getting DEGs from topT object.
multtest multtest
updated 11.1 years ago by ★ 13k • written 11.1 years ago by ★ 13k
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Fwd: (adj.p.value & log2FC) or (B.value & log2FC)
multtest limma multtest limma
11.1 years ago debatosh das ▴ 10
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1.2k
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question about wilcoxon sign rank in multtest package
multtest multtest
12.4 years ago Islam Amin ▴ 10
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0
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1.3k
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converting intensity values to log ratios?
multtest limma siggenes convert multtest limma siggenes convert
13.0 years ago James W. MacDonald 67k
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1
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1.0k
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Difference between Multtest and SAM
multtest multtest
updated 14.1 years ago by 21k • written 14.1 years ago by ▴ 170
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3
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1.2k
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class label
Normalization multtest Normalization multtest
updated 14.1 years ago by 25k • written 14.1 years ago by ▴ 170
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1
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1.9k
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Help with GSEA package
hu6800 cdf genefilter multtest affy gcrma siggenes annaffy GSEABase hu6800 cdf multtest
updated 14.2 years ago by 25k • written 14.2 years ago by ▴ 20
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1
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1.7k
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problems : getting error : Error in .checkKeys(value, Lkeys(x), x@ifnotfound) : value for "GO:0010817" not found
multtest GOstats biomaRt multtest GOstats biomaRt
updated 15.0 years ago by 67k • written 15.1 years ago by ▴ 810
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1
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1.1k
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Question on the paired ttest in multtest package
multtest multtest
updated 15.5 years ago by 67k • written 15.5 years ago by ▴ 40
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0
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1.4k
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multtest: how to adjust multiple contrasts in a single run?
moe430a multtest affy limma moe430a multtest affy limma
15.6 years ago Guido Hooiveld ★ 4.1k
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3
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4.1k
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problem updating packages importing the package "MASS"
multtest multtest
updated 15.7 years ago by 21k • written 15.7 years ago by ▴ 830
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978
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P-values returned from siggenes's sam() function
multtest multtest
15.7 years ago Michal Blazejczyk ▴ 320
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1
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1.6k
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Limma- Filtering After Statistical Analysis
genefilter multtest limma genefilter multtest limma
updated 16.0 years ago by 52k • written 16.0 years ago by ▴ 250
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1.1k
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Help for ANOVA test
multtest limma multtest limma
16.0 years ago John Antonydas Gaspar ▴ 130
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2
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1.7k
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multtest different seed
multtest multtest
16.4 years ago Stefano Moretti ▴ 20
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2
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1.5k
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'Factorial Design' package question
Survival cdf multtest affy factDesign biomaRt Survival cdf multtest affy factDesign
16.7 years ago • updated 16.6 years ago Glazko, Galina ▴ 350
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3
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1.5k
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Webbioc error exprSet vs expressionSet
Preprocessing multtest webbioc Preprocessing multtest webbioc
16.8 years ago Balasubramanian Ganesan ▴ 70
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0
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1.1k
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Extracting expressions after a multtest procedure (part2)
Cancer multtest Cancer multtest
16.9 years ago JUAN MIGUEL MARIN DIAZARAQUE ▴ 70
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3
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1.3k
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Extracting expressions after a multtest procedure (part 2)
multtest multtest
updated 16.9 years ago by 21k • written 16.9 years ago by ▴ 70
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0
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1.2k
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Extracting expressions after a multtest procedure
multtest multtest
16.9 years ago JUAN MIGUEL MARIN DIAZARAQUE ▴ 70
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1.5k
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multtest MTP raw P values = 0
multtest multtest
16.9 years ago Timur Shtatland ▴ 30
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1.3k
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multtest MTP raw P values = 0
multtest multtest
16.9 years ago Timur Shtatland ▴ 30
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910
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p-value output from MTP (multtest) into scientific notations
multtest multtest
17.1 years ago Boel Brynedal ▴ 200
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0
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1.2k
views
MTP error
GO Survival multtest affy affydata annaffy affyPLM affyio GO Survival multtest affy
17.2 years ago Boel Brynedal ▴ 200
0
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1
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926
views
Limma: eBayes makes p-values larger
Cancer multtest limma Cancer multtest limma
updated 17.2 years ago by 67k • written 17.2 years ago by ★ 1.9k
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6
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3.7k
views
how to convert a AffyBatch into ExpressionSet object ?
Annotation GO Survival ExperimentData cdf DynDoc genefilter geneplotter multtest affy GO
updated 17.4 years ago by ▴ 220 • written 17.4 years ago by ★ 2.2k
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2.0k
views
how to convert a AffyBatch into ExpressionSet object ?
Annotation GO Survival ExperimentData cdf DynDoc genefilter geneplotter multtest affy GO
17.4 years ago Min Wook Kim ▴ 20
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1
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1.4k
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Imputation problem in aCGH
aCGH Biobase multtest impute aCGH aCGH Biobase multtest impute aCGH
17.5 years ago Benjamin Otto ▴ 830
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1
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1.5k
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snapCGH; export results of summarize.clones() function from aCGH
aCGH Survival Cancer Breast Biobase annotate genefilter geneplotter multtest limma aCGH
17.6 years ago Steven McKinney ▴ 310
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2
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1.2k
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help for siggene installation
Biobase multtest Biobase multtest
updated 17.7 years ago by ★ 7.4k • written 17.7 years ago by ▴ 60
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3
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2.2k
views
hyperGTest, KEGG
Annotation Pathways multtest siggenes RBGL GOstats Annotation Pathways multtest siggenes
updated 17.8 years ago by ★ 7.4k • written 17.8 years ago by ▴ 80
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3
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1.5k
views
webbioc chicken
Microarray cdf probe multtest affy webbioc Microarray cdf probe multtest affy webbioc
updated 17.9 years ago by ▴ 870 • written 17.9 years ago by ▴ 20
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3
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1.4k
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GOstats hyperGTest question
Biobase annotate genefilter multtest graph Biobase annotate genefilter multtest graph
updated 18.0 years ago by ★ 7.4k • written 18.0 years ago by ▴ 80
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2
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1.4k
views
imputing missing data for 70mer array platform, need advice
aCGH CGH multtest impute aCGH oligo aCGH CGH multtest impute aCGH oligo
updated 18.0 years ago by 21k • written 18.0 years ago by ▴ 50
0
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1
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1.4k
views
[R] Why SAM has totally diffent results in R2.1.1 and R2.4.0
Microarray Genetics Survival multtest siggenes safe Microarray Genetics Survival multtest
updated 18.2 years ago by ▴ 900 • written 18.2 years ago by 25k
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5
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1.9k
views
error coercing an exprSet to ExpressionSet
GO cdf Biobase annotate multtest affy limma RBGL GOstats Category affycoretools GO cdf
updated 18.2 years ago by ★ 7.4k • written 18.2 years ago by ▴ 890
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0
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1.2k
views
help with RankProd plaase
GO Survival cdf genefilter multtest affy limma RankProd Category affycoretools GO cdf
18.2 years ago Kimpel, Mark W ▴ 890
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0
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1.3k
views
problems with Affy vignette and affybatch objects
GO Survival cdf Biobase annotate genefilter multtest affy affydata graph limma gcrma
18.2 years ago Martin Morgan 25k
0
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4
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1.4k
views
problems with Affy vignette and affybatch objects
GO Survival cdf Biobase annotate genefilter multtest reposTools affy affydata graph GO
updated 18.2 years ago by 25k • written 18.2 years ago by ★ 2.2k
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0
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763
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sensitivity of maxT correction
multtest multtest
18.3 years ago A S ▴ 10
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3
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2.2k
views
Situation of the legend in the plotPCA of the affycoretools library
GO Survival cdf annotate genefilter multtest affy graph limma RBGL GOstats Category GO
updated 18.3 years ago by 67k • written 18.3 years ago by ▴ 350
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Answer: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k
Following the discussion of this post, the package [gDNAx](https://bioconductor.org/packages/gDNAx) has been fixed in devel and release 1.4…
Answer: Selection of correct coefficients or contrasts in DESeq2 by James W. MacDonald 67k
Using R's model formulation for three-way interactions is probably not the way to go here. Or at least I wouldn't do it that way. An easier…
Comment: How to generate circular cnetplot and color nodes and edges in the same plot ? by Blandine • 0
Thank you so much ! It's working !
Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by James W. MacDonald 67k
Yes. If you have the Illumina IDs, then all the annotation data that `cpg.annotate` uses will be based on hg19. It doesn't matter if TCGA l…
Comment: Recount3 data correspond to TCGA data by Leonardo Collado Torres ★ 1.1k
Thanks @fep29! ^^
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A: DESeq2 interaction term
Comment: Recount3 data correspond to TCGA data
Answer: DESeq2- merging technical vs biological replicates
Answer: SingleCellExperiment convenience function for metadata+expression?
How to correct for tumor purity using DESeq2 to analyze TCGA tumor sample expression.
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