Showing : multtest • reset
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Cross-validation with multiple control subgroups in limma
limma multtest
8 months ago Ali Barry ▴ 40
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Correcting for multiple comparisons in permutation procedure using multtest
multtest ss.maxT ss.minP sd.maxT
5.3 years ago john.gordon.yellow • 0
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1.1k
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Trouble with multtest
mt.teststat multtest
7.9 years ago dutzr14 • 0
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2.2k
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DE analysis of PCR array [was: dataset dim for siggenes]
qPCR Normalization multtest limma siggenes
11.0 years ago • updated 8.7 years ago Gordon Smyth 53k
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1
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1.7k
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Cannot load library multtest; package or namespace load failed
multtest
8.9 years ago Guido Hooiveld ★ 4.1k
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3.1k
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mt.teststat
multtest DECIPHER multtest DECIPHER
updated 9.7 years ago by ▴ 20 • written 22.4 years ago by ▴ 220
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1.5k
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Not getting Adjusted p-values from multtest package
multtest methylation adjusted pvalue
updated 9.8 years ago by ▴ 110 • written 9.8 years ago by ▴ 10
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6.5k
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Adjust p-values of a matrix of p-values
multtest
updated 10.8 years ago by 53k • written 10.8 years ago by ▴ 270
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2
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1.7k
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About correlation tests between pairs of genes
multtest
updated 10.9 years ago by ★ 3.8k • written 10.9 years ago by ▴ 270
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1.7k
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prefiltering genelist before LIMMA & cut-off paramter for getting DEGs from topT object.
multtest multtest
updated 11.8 years ago by ★ 13k • written 11.8 years ago by ★ 13k
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Fwd: (adj.p.value & log2FC) or (B.value & log2FC)
multtest limma multtest limma
11.8 years ago debatosh das ▴ 10
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1.3k
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question about wilcoxon sign rank in multtest package
multtest multtest
13.0 years ago Islam Amin ▴ 10
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1.4k
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converting intensity values to log ratios?
multtest limma siggenes convert multtest limma siggenes convert
13.6 years ago James W. MacDonald 68k
0
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1
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1.1k
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Difference between Multtest and SAM
multtest multtest
updated 14.7 years ago by 21k • written 14.7 years ago by ▴ 170
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1.3k
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class label
Normalization multtest Normalization multtest
updated 14.7 years ago by 25k • written 14.7 years ago by ▴ 170
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1
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2.0k
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Help with GSEA package
hu6800 cdf genefilter multtest affy gcrma siggenes annaffy GSEABase hu6800 cdf multtest
updated 14.8 years ago by 25k • written 14.8 years ago by ▴ 20
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1.8k
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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 15.7 years ago by 68k • written 15.7 years ago by ▴ 810
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1
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1.3k
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Question on the paired ttest in multtest package
multtest multtest
updated 16.1 years ago by 68k • written 16.1 years ago by ▴ 40
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1.5k
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multtest: how to adjust multiple contrasts in a single run?
moe430a multtest affy limma moe430a multtest affy limma
16.2 years ago Guido Hooiveld ★ 4.1k
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4.4k
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problem updating packages importing the package "MASS"
multtest multtest
updated 16.3 years ago by 21k • written 16.3 years ago by ▴ 830
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1.1k
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P-values returned from siggenes's sam() function
multtest multtest
16.4 years ago Michal Blazejczyk ▴ 320
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1
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1.7k
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Limma- Filtering After Statistical Analysis
genefilter multtest limma genefilter multtest limma
updated 16.6 years ago by 53k • written 16.6 years ago by ▴ 250
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1.2k
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Help for ANOVA test
multtest limma multtest limma
16.6 years ago John Antonydas Gaspar ▴ 130
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2
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1.8k
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multtest different seed
multtest multtest
17.0 years ago Stefano Moretti ▴ 20
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2
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1.7k
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'Factorial Design' package question
Survival cdf multtest affy factDesign biomaRt Survival cdf multtest affy factDesign
17.3 years ago Glazko, Galina ▴ 350
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3
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1.6k
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Webbioc error exprSet vs expressionSet
Preprocessing multtest webbioc Preprocessing multtest webbioc
17.5 years ago Balasubramanian Ganesan ▴ 70
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1.2k
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Extracting expressions after a multtest procedure (part2)
Cancer multtest Cancer multtest
17.5 years ago JUAN MIGUEL MARIN DIAZARAQUE ▴ 70
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3
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1.4k
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Extracting expressions after a multtest procedure (part 2)
multtest multtest
updated 17.5 years ago by 21k • written 17.5 years ago by ▴ 70
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1.3k
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Extracting expressions after a multtest procedure
multtest multtest
17.5 years ago JUAN MIGUEL MARIN DIAZARAQUE ▴ 70
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multtest MTP raw P values = 0
multtest multtest
17.5 years ago Timur Shtatland ▴ 30
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1.4k
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multtest MTP raw P values = 0
multtest multtest
17.6 years ago Timur Shtatland ▴ 30
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1000
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p-value output from MTP (multtest) into scientific notations
multtest multtest
17.8 years ago Boel Brynedal ▴ 200
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0
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1.3k
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MTP error
GO Survival multtest affy affydata annaffy affyPLM affyio GO Survival multtest affy
17.8 years ago Boel Brynedal ▴ 200
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1
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1.0k
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Limma: eBayes makes p-values larger
Cancer multtest limma Cancer multtest limma
updated 17.9 years ago by 68k • written 17.9 years ago by ★ 1.9k
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6
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4.0k
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how to convert a AffyBatch into ExpressionSet object ?
Annotation GO Survival ExperimentData cdf DynDoc genefilter geneplotter multtest affy GO
updated 18.1 years ago by ▴ 220 • written 18.1 years ago by ★ 2.2k
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how to convert a AffyBatch into ExpressionSet object ?
Annotation GO Survival ExperimentData cdf DynDoc genefilter geneplotter multtest affy GO
18.1 years ago Min Wook Kim ▴ 20
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1.5k
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Imputation problem in aCGH
aCGH Biobase multtest impute aCGH aCGH Biobase multtest impute aCGH
18.2 years ago Benjamin Otto ▴ 830
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1.6k
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snapCGH; export results of summarize.clones() function from aCGH
aCGH Survival Cancer Breast Biobase annotate genefilter geneplotter multtest limma aCGH
18.2 years ago Steven McKinney ▴ 310
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1.4k
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help for siggene installation
Biobase multtest Biobase multtest
updated 18.3 years ago by ★ 7.4k • written 18.3 years ago by ▴ 60
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3
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2.4k
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hyperGTest, KEGG
Annotation Pathways multtest siggenes RBGL GOstats Annotation Pathways multtest siggenes
updated 18.4 years ago by ★ 7.4k • written 18.4 years ago by ▴ 80
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3
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1.6k
views
webbioc chicken
Microarray cdf probe multtest affy webbioc Microarray cdf probe multtest affy webbioc
updated 18.6 years ago by ▴ 870 • written 18.6 years ago by ▴ 20
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3
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1.6k
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GOstats hyperGTest question
Biobase annotate genefilter multtest graph Biobase annotate genefilter multtest graph
updated 18.6 years ago by ★ 7.4k • written 18.6 years ago by ▴ 80
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2
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1.5k
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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 18.7 years ago by 21k • written 18.7 years ago by ▴ 50
0
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1
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1.6k
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[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 18.8 years ago by ▴ 900 • written 18.8 years ago by 25k
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5
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2.1k
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error coercing an exprSet to ExpressionSet
GO cdf Biobase annotate multtest affy limma RBGL GOstats Category affycoretools GO cdf
updated 18.8 years ago by ★ 7.4k • written 18.8 years ago by ▴ 890
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0
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1.3k
views
help with RankProd plaase
GO Survival cdf genefilter multtest affy limma RankProd Category affycoretools GO cdf
18.8 years ago Kimpel, Mark W ▴ 890
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0
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1.4k
views
problems with Affy vignette and affybatch objects
GO Survival cdf Biobase annotate genefilter multtest affy affydata graph limma gcrma
18.9 years ago Martin Morgan 25k
0
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4
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1.6k
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problems with Affy vignette and affybatch objects
GO Survival cdf Biobase annotate genefilter multtest reposTools affy affydata graph GO
updated 18.9 years ago by 25k • written 18.9 years ago by ★ 2.2k
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0
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867
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sensitivity of maxT correction
multtest multtest
18.9 years ago A S ▴ 10
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3
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2.4k
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 19.0 years ago by 68k • written 19.0 years ago by ▴ 350
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Comment: Heatmap of the Count Matrix by ArnulfoByrd • 0
Perhaps PCA loadings offer a more comprehensive perspective. Now, thinking back, I recall struggling with a similar data reduction dilemma …
Answer: readBam vs read_bam_insert_metrics by James W. MacDonald 68k
Depends on what you mean by input. If you mean to ask if you use `readBam` to generate something to use as an argument to `read_bam_insert_…
Answer: How to construct a BSgenome object from a custom genome assembly using BSgenomeF by James W. MacDonald 68k
There is an example in the help page for `forgeBSgenomePkgFromTwobitFile`. Have you tried emulating that?
Answer: Guidance on limma for pseudobulk scRNA-seq with multi-factor design by Gordon Smyth 53k
What you describe sounds a good approach to me. I would also use sample weights (`sample.weights=TRUE` when running `voomLmFit`) and robust…
Comment: Can I set the normalizationFactors of DEseq2 object as 1 after using RUVg? by Michael Love 43k
I moved your post from an "answer" to a "comment". I don't know about `offst()` function, what is the scale or direction, or whether you a…
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Answer: Limpa Pipeline Order
A: How barcode-plot enrichment is calculated?
A: How barcode-plot enrichment is calculated?
Answer: ROAST compare results with complex design
How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?
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