Showing : MethylationArrayData • reset
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TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
8 weeks ago • updated 6 weeks ago Giovanni Calice ▴ 160
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Normalization in methylation analysis
Methylation minfi preprocessQuantile MethylationArrayData preprocessFunnorm
4 months ago kyj2226 • 0
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6
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674
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Methylation data analysis
MethylationArrayData methylationArrayAnalysis
5 months ago aldea85 • 0
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3
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522
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Merging Methylation data (M-values) with phenotypic data
MethylationArrayData methylationArrayAnalysis
updated 8 months ago by 65k • written 8 months ago by • 0
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476
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Read methylation data from tar files on GEO (GSE73303)
GeneExpression Bioconductor GEOquery MethylationArrayData
9 months ago Arianna • 0
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642
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How to perform a methylation analyisis from m values
MethylationArrayData methylationArrayAnalysis
11 months ago • updated 10 months ago Irene • 0
1
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1
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562
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urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 12 months ago by ▴ 40 • written 12 months ago by • 0
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1.1k
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cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 12 months ago by ▴ 180 • written 12 months ago by • 0
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543
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LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 13 months ago by 50k • written 13 months ago by • 0
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4
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Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 14 months ago by 65k • written 14 months ago by • 0
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1.2k
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minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 14 months ago by • 0
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2
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1.4k
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ChAMP package:Error in cmdscale(d) : 'k' must be in {1, 2, .. n - 1}
MethylationArrayData
18 months ago shuangshuang • 0
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2
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1.2k
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Limma vs. lm for methylation data
limma MethylationArrayData MethylationArray
2.1 years ago fluentin44 • 0
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719
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filtering options in RnBeads for array data
Epigenetics RnBeads MethylationArrayData methylationArrayAnalysis
2.1 years ago Jitendra ▴ 10
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830
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Problem loading Red channel idat files with champ.load
R MethylationArrayData ChAMP
2.4 years ago Paulina • 0
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720
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DNA methylation EPIC array and ChromHMM
chromhmmData MethylationArrayData
2.7 years ago macsue.jacques ▴ 10
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minfi - estimateCellCounts2-proportions sum more than 1
minfi minfiData MethylationArrayData
2.7 years ago ponche_de_kiwi • 0
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6
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3.4k
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Merge problems in R
methylationArrayAnalysis ChAMP MethylationArrayData
2.8 years ago FWNL15 • 0
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913
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Error in reading metharray sheet
DifferentialMethylation MethylationArrayData
updated 2.9 years ago by ▴ 780 • written 2.9 years ago by • 0
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1.0k
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How to get illumina CpG IDs by gene name?
MethylationArrayData RnBeads
3.2 years ago D ▴ 10
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2.7k
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Unable to read in the IDAT files using read.metharray.exp()
MethylationArrayData methy Bioconductor minfi
3.2 years ago shweta • 0
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1
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1.8k
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DMR Plot
dmr MethylationArrayData DMRcatedata
updated 3.5 years ago by 65k • written 3.5 years ago by • 0
22 results • Page 1 of 1
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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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