Showing : multtest • reset
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Correcting for multiple comparisons in permutation procedure using multtest
multtest ss.maxT ss.minP sd.maxT
4.0 years ago john.gordon.yellow • 0
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870
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Trouble with multtest
mt.teststat multtest
6.6 years ago dutzr14 • 0
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1.8k
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DE analysis of PCR array [was: dataset dim for siggenes]
qPCR Normalization multtest limma siggenes
9.7 years ago • updated 7.3 years ago Gordon Smyth 50k
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1.2k
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Cannot load library multtest; package or namespace load failed
multtest
7.5 years ago Guido Hooiveld ★ 3.9k
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2.7k
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mt.teststat
multtest DECIPHER multtest DECIPHER
updated 8.3 years ago by ▴ 20 • written 21.1 years ago by ▴ 220
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Not getting Adjusted p-values from multtest package
multtest methylation adjusted pvalue
updated 8.5 years ago by ▴ 110 • written 8.5 years ago by ▴ 10
4
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2
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5.9k
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Adjust p-values of a matrix of p-values
multtest
updated 9.5 years ago by 50k • written 9.5 years ago by ▴ 250
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1.2k
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About correlation tests between pairs of genes
multtest
updated 9.5 years ago by ★ 3.7k • written 9.5 years ago by ▴ 250
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1
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1.4k
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prefiltering genelist before LIMMA & cut-off paramter for getting DEGs from topT object.
multtest multtest
updated 10.4 years ago by ★ 13k • written 10.4 years ago by ★ 13k
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Fwd: (adj.p.value & log2FC) or (B.value & log2FC)
multtest limma multtest limma
10.4 years ago debatosh das ▴ 10
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question about wilcoxon sign rank in multtest package
multtest multtest
11.7 years ago Islam Amin ▴ 10
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1.1k
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converting intensity values to log ratios?
multtest limma siggenes convert multtest limma siggenes convert
12.3 years ago James W. MacDonald 65k
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1
reply
902
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Difference between Multtest and SAM
multtest multtest
updated 13.3 years ago by 21k • written 13.3 years ago by ▴ 170
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994
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class label
Normalization multtest Normalization multtest
updated 13.4 years ago by 25k • written 13.4 years ago by ▴ 170
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1.7k
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Help with GSEA package
hu6800 cdf genefilter multtest affy gcrma siggenes annaffy GSEABase hu6800 cdf multtest
updated 13.4 years ago by 25k • written 13.4 years ago by ▴ 20
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1.5k
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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 14.3 years ago by 65k • written 14.3 years ago by ▴ 810
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1.0k
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Question on the paired ttest in multtest package
multtest multtest
updated 14.8 years ago by 65k • written 14.8 years ago by ▴ 40
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1.2k
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multtest: how to adjust multiple contrasts in a single run?
moe430a multtest affy limma moe430a multtest affy limma
14.9 years ago Guido Hooiveld ★ 3.9k
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3
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3.4k
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problem updating packages importing the package "MASS"
multtest multtest
updated 15.0 years ago by 21k • written 15.0 years ago by ▴ 830
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865
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P-values returned from siggenes's sam() function
multtest multtest
15.0 years ago Michal Blazejczyk ▴ 320
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1.4k
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Limma- Filtering After Statistical Analysis
genefilter multtest limma genefilter multtest limma
updated 15.3 years ago by 50k • written 15.3 years ago by ▴ 250
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Help for ANOVA test
multtest limma multtest limma
15.3 years ago John Antonydas Gaspar ▴ 130
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1.5k
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multtest different seed
multtest multtest
15.6 years ago Stefano Moretti ▴ 20
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'Factorial Design' package question
Survival cdf multtest affy factDesign biomaRt Survival cdf multtest affy factDesign
15.9 years ago Glazko, Galina ▴ 350
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3
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1.2k
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Webbioc error exprSet vs expressionSet
Preprocessing multtest webbioc Preprocessing multtest webbioc
16.1 years ago Balasubramanian Ganesan ▴ 70
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994
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Extracting expressions after a multtest procedure (part2)
Cancer multtest Cancer multtest
16.2 years ago JUAN MIGUEL MARIN DIAZARAQUE ▴ 70
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3
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1.1k
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Extracting expressions after a multtest procedure (part 2)
multtest multtest
updated 16.2 years ago by 21k • written 16.2 years ago by ▴ 70
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1.1k
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Extracting expressions after a multtest procedure
multtest multtest
16.2 years ago JUAN MIGUEL MARIN DIAZARAQUE ▴ 70
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multtest MTP raw P values = 0
multtest multtest
16.2 years ago Timur Shtatland ▴ 30
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multtest MTP raw P values = 0
multtest multtest
16.2 years ago Timur Shtatland ▴ 30
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788
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p-value output from MTP (multtest) into scientific notations
multtest multtest
16.4 years ago Boel Brynedal ▴ 200
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1.1k
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MTP error
GO Survival multtest affy affydata annaffy affyPLM affyio GO Survival multtest affy
16.5 years ago Boel Brynedal ▴ 200
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1
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781
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Limma: eBayes makes p-values larger
Cancer multtest limma Cancer multtest limma
updated 16.5 years ago by 65k • written 16.5 years ago by ★ 1.9k
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6
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3.4k
views
how to convert a AffyBatch into ExpressionSet object ?
Annotation GO Survival ExperimentData cdf DynDoc genefilter geneplotter multtest affy GO
updated 16.7 years ago by ▴ 220 • written 16.7 years ago by ★ 2.2k
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0
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1.8k
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how to convert a AffyBatch into ExpressionSet object ?
Annotation GO Survival ExperimentData cdf DynDoc genefilter geneplotter multtest affy GO
16.7 years ago Min Wook Kim ▴ 20
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1
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1.2k
views
Imputation problem in aCGH
aCGH Biobase multtest impute aCGH aCGH Biobase multtest impute aCGH
16.8 years ago Benjamin Otto ▴ 830
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1.3k
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snapCGH; export results of summarize.clones() function from aCGH
aCGH Survival Cancer Breast Biobase annotate genefilter geneplotter multtest limma aCGH
16.9 years ago Steven McKinney ▴ 310
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1.1k
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help for siggene installation
Biobase multtest Biobase multtest
updated 17.0 years ago by ★ 7.4k • written 17.0 years ago by ▴ 60
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2.0k
views
hyperGTest, KEGG
Annotation Pathways multtest siggenes RBGL GOstats Annotation Pathways multtest siggenes
updated 17.1 years ago by ★ 7.4k • written 17.1 years ago by ▴ 80
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webbioc chicken
Microarray cdf probe multtest affy webbioc Microarray cdf probe multtest affy webbioc
updated 17.2 years ago by ▴ 870 • written 17.2 years ago by ▴ 20
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3
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1.2k
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GOstats hyperGTest question
Biobase annotate genefilter multtest graph Biobase annotate genefilter multtest graph
updated 17.3 years ago by ★ 7.4k • written 17.3 years ago by ▴ 80
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2
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1.2k
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imputing missing data for 70mer array platform, need advice
aCGH CGH multtest impute aCGH oligo aCGH CGH multtest impute aCGH oligo
updated 17.3 years ago by 21k • written 17.3 years ago by ▴ 50
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1
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1.3k
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 17.5 years ago by ▴ 900 • written 17.5 years ago by 25k
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5
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1.5k
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error coercing an exprSet to ExpressionSet
GO cdf Biobase annotate multtest affy limma RBGL GOstats Category affycoretools GO cdf
updated 17.5 years ago by ★ 7.4k • written 17.5 years ago by ▴ 890
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0
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1.0k
views
help with RankProd plaase
GO Survival cdf genefilter multtest affy limma RankProd Category affycoretools GO cdf
17.5 years ago Kimpel, Mark W ▴ 890
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0
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1.2k
views
problems with Affy vignette and affybatch objects
GO Survival cdf Biobase annotate genefilter multtest affy affydata graph limma gcrma
17.5 years ago Martin Morgan 25k
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4
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1.2k
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problems with Affy vignette and affybatch objects
GO Survival cdf Biobase annotate genefilter multtest reposTools affy affydata graph GO
updated 17.5 years ago by 25k • written 17.5 years ago by ★ 2.2k
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0
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662
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sensitivity of maxT correction
multtest multtest
17.6 years ago A S ▴ 10
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3
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2.0k
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 17.6 years ago by 65k • written 17.6 years ago by ▴ 350
0
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2
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1.0k
views
error with GOHyperG
drosophila2 cdf Biobase annotate genefilter multtest RBGL GOstats drosophila2 cdf RBGL
updated 17.7 years ago by ★ 7.4k • written 17.7 years ago by ▴ 10
50 results • Page 1 of 1
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Comment: Multi-factorial, longitudinal disease progression analysis with unbalanced patie by Dylan.Sheerin • 0
Thank you very much, Gordon. I'll give voomLmFit a go!
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie by Gordon Smyth 50k
Including subjectID in the design matrix always accounts for unbalanced sampling and patient variation but subjects with incomplete records…
Comment: Log-cpm values from limma by Gordon Smyth 50k
No, it does not mean that. `voom()` uses the design matrix, including the W covariates, to compute precision weights but not to adjust the …
Comment: Extremely small p-values using Limma for proteomic data by Abbey • 0
This is the code. The only part I changed was adding the contrasts.fit as you suggested. Thanks for taking a look! ``` # Load necessary …
Comment: Extremely small p-values using Limma for proteomic data by James W. MacDonald 65k
Probably. I would not expect such large fold changes. But without seeing your code, who knows?
Votes
Answer: Multi-factorial, longitudinal disease progression analysis with unbalanced patie
Answer: Extremely small p-values using Limma for proteomic data
Bioconductor 3.19 is Released!
A: Volcanoplot with limma - RAW P-values or Adj.P-Values
Answer: Mac ARM64 build report for BioC 3.19 from 'kjohnson3' reporting ERROR which it
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