Showing : methylationArrayAnalysis • reset
0
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2
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278
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Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes))
methylationArrayAnalysis Normalization Epigenetics MethylationArrayData
24 days ago a.alkema • 0
0
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1
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164
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Unable to find sample sheet file for ChAMP methylation data analysis
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 5 weeks ago by 68k • written 5 weeks ago by • 0
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13
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1.3k
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When doing differential methylation using the sesame package, seems to only go one way
methylation sesame methylationArrayAnalysis
updated 5 months ago by ▴ 20 • written 5 months ago by ▴ 10
1
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2
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675
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In the sesame package, what does the estimate output mean from testEnrichment()
MethylationArray methylation sesame methylationArrayAnalysis
5 months ago ramiro.barrantes ▴ 10
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1
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406
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Annotating DMRs
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 5 months ago by 68k • written 5 months ago by ▴ 10
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1
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627
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ChAMP analysis Error: Meth Matrix and UnMeth Matrix seems not paried correctly AND incomplete final line
MethylationArray methylationArrayAnalysis ChAMP
updated 3 months ago by • 0 • written 7 months ago by • 0
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7
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1.6k
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Methylation Analysis experiment design using Limma
DNAMethylation limma methylationArrayAnalysis
10 months ago hortense96 • 0
1
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1
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1.3k
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Need Advice: Issue with ChAMP Analysis - Meth and UnMeth Matrix Pairing Error
MethylationArray methylationArrayAnalysis ChAMP
updated 12 months ago by 68k • written 12 months ago by • 0
1
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4
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1.2k
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EPIC or EPICv2 demo data of brain samples. FlowSorted.DLPFC.EPIC Availability?
DNAMethylation MethylationArray methylationArrayAnalysis illumina
12 months ago mikat • 0
2
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4
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1.3k
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Correct the batch effect in methylation analysis in R
BatchEffect limma methylationArrayAnalysis
updated 14 months ago by 52k • written 14 months ago by • 0
3
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6
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1.3k
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Methylation data analysis
MethylationArrayData methylationArrayAnalysis
15 months ago aldea85 • 0
0
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1
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1.2k
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EPIC v2 demo data from blood samples
MethylationArray methylationArrayAnalysis
updated 17 months ago by 68k • written 17 months ago by • 0
1
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3
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992
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Merging Methylation data (M-values) with phenotypic data
MethylationArrayData methylationArrayAnalysis
updated 18 months ago by 68k • written 18 months ago by • 0
0
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1
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3.7k
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Warning messages in detecting P-values
minfiDataEPIC methylationArrayAnalysis
updated 19 months ago by ★ 4.7k • written 19 months ago by ▴ 10
1
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2
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917
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edgeR, RRBS Library size preparation
RRBSdata edgeR methylationArrayAnalysis
20 months ago Krzysztof • 0
1
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2
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1.1k
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How to perform a methylation analyisis from m values
MethylationArrayData methylationArrayAnalysis
21 months ago • updated 20 months ago Irene • 0
1
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1
reply
847
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urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 22 months ago by ▴ 40 • written 22 months ago by • 0
2
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6
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1.6k
views
cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 22 months ago by ▴ 230 • written 22 months ago by • 0
0
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2
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1.5k
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Error in loading file using champ.load() from ChAMP package
champ.load epicarray ChAMP methylationArrayAnalysis
22 months ago arisarkar88 ▴ 40
0
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1
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829
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LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 23 months ago by 52k • written 23 months ago by • 0
0
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1
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915
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specifying comparison of interest in the minfi Bumhunter function
limma bumphunter methylationArrayAnalysis minfi
updated 23 months ago by 68k • written 24 months ago by • 0
5
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1
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1.9k
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Support for new Illumina human methylation EPIC array v2
human methylationArrayAnalysis
updated 13 months ago by • 0 • written 24 months ago by ▴ 80
0
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4
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1.6k
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Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 24 months ago by 68k • written 24 months ago by • 0
0
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5
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1.9k
views
minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 24 months ago by • 0
0
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1
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889
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Job: 'Omics data analyst for HPCBio, University of Illinois
SingleCell rnaseq methylationArrayAnalysis Spatial
written 2.2 years ago by ★ 2.0k
0
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3
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4.0k
views
Error: BiocParallel errors 1 remote errors, element index: 1 506 unevaluated and other errors first remote error:
methylationArrayAnalysis
updated 19 months ago by • 0 • written 2.3 years ago by • 0
0
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7
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3.4k
views
ERROR happens when install "DSS" package
methylationArrayAnalysis ChAMP DMP DSS
updated 2.3 years ago by 68k • written 2.8 years ago by • 0
0
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0
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952
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filtering options in RnBeads for array data
Epigenetics RnBeads MethylationArrayData methylationArrayAnalysis
2.9 years ago Jitendra ▴ 10
0
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0
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1.2k
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getsex function error.
QualityControl methylationArrayAnalysis
3.1 years ago zusman • 0
2
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4
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1.6k
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How to get methylation data in count data format from "Infinium MethylationEPIC BeadChips (Illumina)" idat files
methylationArrayAnalysis illuminaio beadarray DSS bsseqData
3.1 years ago Jojo • 0
0
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6
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4.2k
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Merge problems in R
methylationArrayAnalysis ChAMP MethylationArrayData
3.6 years ago FWNL15 • 0
0
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2
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1.2k
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Limma experiment design and making contrasts
limma methylationArrayAnalysis
3.9 years ago Kesava • 0
1
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8
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1.8k
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EPIC array single replicate pipeline?
minfi methylationArrayAnalysis
3.9 years ago chay • 0
0
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2
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1.7k
views
champ.SVD() : Error in while (step == 0) { : missing value where TRUE/FALSE needed
methylationArrayAnalysis EPICarray ChAMP Champ.SVD
3.9 years ago arisarkar88 ▴ 40
0
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2
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1.1k
views
Error myDMP not found
Illumina methylationArrayAnalysis ChAMPdata ChAMP
4.1 years ago sissialva21 • 0
2
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7
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3.2k
views
Blood cell composition adjustment in methylation EPIC array: ChAMP
MethylationArray methylationArrayAnalysis ChAMP
updated 16 months ago by • 0 • written 4.2 years ago by ▴ 20
1
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1
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1.5k
views
Error in read.metharray(basenames = files, extended = extended, verbose = verbose, : The following specified files do not exist:201172580052_R02C…
ArrayExpress methylationArrayAnalysis
updated 4.3 years ago by 68k • written 4.3 years ago by • 0
37 results • Page 1 of 1
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Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k
No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…
Answer: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k
I strongly recommend to not concern yourself with these sorts of marginal problems because you're entering a realm in which you're entirely…
Comment: Problem using locateVariants() from the VariantAnnotation package by Marco • 0
Ok, I think I found the problem. By looking at the `locateVariants()` source code, I was able to pinpoint that the problems is when trying …
Comment: Conumee for EPIC and EPICv2 copy number by Adam • 0
As described on the [github](https://github.com/hovestadtlab/conumee2) the way to do this is using array_type = c("EPIC", "EPICv2") This i…
Comment: graper 1.22 Build is Broken by shepherl 4.1k
This is not an appropriate place to report this. this is for usage questions. maintainers are notified automatically when it is failing on …
Votes
A: Unbalanced experiment with multiple samples from each patient.
Unbalanced experiment with multiple samples from each patient.
Answer: Vertical line at A=0, nothing else, on MA plot
Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct
Answer: Group-specific condition effects with individuals nested: matrix is not full ra
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