Showing : MethylationArrayData • reset
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Mismatch between Illumina Mouse Methylation BeadChip annotation and genome browsers (UCSC/Ensembl)
methylationArrayAnalysis MethylationArrayData
updated 5 months ago by 68k • written 5 months ago by • 0
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Conumee for EPIC and EPICv2 copy number
conumee CopyNumberVariation MethylationArrayData
6 months ago Adam • 0
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Methylation data - different probes are classified differently based on transcript? (Illumina methylation arrays, using minfi)
minf minfiDataEPIC MethylationArrayData MethylationArray EPICv2manifest
7 months ago charlie.wright • 0
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Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes))
methylationArrayAnalysis Normalization Epigenetics MethylationArrayData
7 months ago a.alkema • 0
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Unable to find sample sheet file for ChAMP methylation data analysis
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 7 months ago by 68k • written 7 months ago by • 0
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Annotating DMRs
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 12 months ago by 68k • written 12 months ago by ▴ 10
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TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
18 months ago Giovanni Calice ▴ 160
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Normalization in methylation analysis
Methylation minfi preprocessQuantile MethylationArrayData preprocessFunnorm
21 months ago kyj2226 • 0
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Methylation data analysis
MethylationArrayData methylationArrayAnalysis
22 months ago aldea85 • 0
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Merging Methylation data (M-values) with phenotypic data
MethylationArrayData methylationArrayAnalysis
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
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Read methylation data from tar files on GEO (GSE73303)
GeneExpression Bioconductor GEOquery MethylationArrayData
2.2 years ago Arianna • 0
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How to perform a methylation analyisis from m values
MethylationArrayData methylationArrayAnalysis
2.3 years ago Irene • 0
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urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 2.4 years ago by ▴ 40 • written 2.4 years ago by • 0
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6
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1.9k
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cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 2.4 years ago by ▴ 230 • written 2.4 years ago by • 0
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999
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LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 2.5 years ago by 53k • written 2.5 years ago by • 0
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Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 2.5 years ago by 68k • written 2.5 years ago by • 0
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2.2k
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minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 2.5 years ago by • 0
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2.4k
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ChAMP package:Error in cmdscale(d) : 'k' must be in {1, 2, .. n - 1}
MethylationArrayData
2.9 years ago shuangshuang • 0
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1.9k
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Limma vs. lm for methylation data
limma MethylationArrayData MethylationArray
3.4 years ago fluentin44 • 0
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1.1k
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filtering options in RnBeads for array data
Epigenetics RnBeads MethylationArrayData methylationArrayAnalysis
3.5 years ago Jitendra ▴ 10
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1.2k
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Problem loading Red channel idat files with champ.load
R MethylationArrayData ChAMP
3.8 years ago Paulina • 0
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1.2k
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DNA methylation EPIC array and ChromHMM
chromhmmData MethylationArrayData
4.1 years ago macsue.jacques ▴ 10
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minfi - estimateCellCounts2-proportions sum more than 1
minfi minfiData MethylationArrayData
4.1 years ago ponche_de_kiwi • 0
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6
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4.7k
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Merge problems in R
methylationArrayAnalysis ChAMP MethylationArrayData
4.2 years ago FWNL15 • 0
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1.3k
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Error in reading metharray sheet
DifferentialMethylation MethylationArrayData
updated 4.3 years ago by ▴ 780 • written 4.3 years ago by • 0
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1.5k
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How to get illumina CpG IDs by gene name?
MethylationArrayData RnBeads
4.5 years ago D ▴ 10
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4
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3.7k
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Unable to read in the IDAT files using read.metharray.exp()
MethylationArrayData methy Bioconductor minfi
4.6 years ago shweta • 0
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3.2k
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DMR Plot
dmr MethylationArrayData DMRcatedata
updated 4.9 years ago by 68k • written 4.9 years ago by • 0
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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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