Showing : methylationArrayAnalysis • reset
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Mismatch between Illumina Mouse Methylation BeadChip annotation and genome browsers (UCSC/Ensembl)
methylationArrayAnalysis MethylationArrayData
updated 26 days ago by 68k • written 26 days ago by • 0
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83
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Correlation threshold
MethylationArray methylationArrayAnalysis StatisticalMethod
28 days ago user_bioinfo • 0
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2
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267
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Conumee2 - CNV.summaryplot()
conumee CopyNumberVariation MethylationAnalysis methylationArrayAnalysis EPICv2manifest
updated 7 weeks ago by 68k • written 7 weeks ago by • 0
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2
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344
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Meffil: error in functional normalization function (Error in rg.to.mu(rg, probes))
methylationArrayAnalysis Normalization Epigenetics MethylationArrayData
11 weeks ago a.alkema • 0
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218
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Unable to find sample sheet file for ChAMP methylation data analysis
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 3 months ago by 68k • written 3 months ago by • 0
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13
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1.5k
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When doing differential methylation using the sesame package, seems to only go one way
methylation sesame methylationArrayAnalysis
updated 7 months ago by ▴ 20 • written 7 months ago by ▴ 10
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In the sesame package, what does the estimate output mean from testEnrichment()
MethylationArray methylation sesame methylationArrayAnalysis
7 months ago ramiro.barrantes ▴ 10
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484
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Annotating DMRs
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 7 months ago by 68k • written 7 months ago by ▴ 10
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711
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ChAMP analysis Error: Meth Matrix and UnMeth Matrix seems not paried correctly AND incomplete final line
MethylationArray methylationArrayAnalysis ChAMP
updated 4 months ago by • 0 • written 9 months ago by • 0
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7
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1.9k
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Methylation Analysis experiment design using Limma
DNAMethylation limma methylationArrayAnalysis
12 months ago hortense96 • 0
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1.4k
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Need Advice: Issue with ChAMP Analysis - Meth and UnMeth Matrix Pairing Error
MethylationArray methylationArrayAnalysis ChAMP
updated 14 months ago by 68k • written 14 months ago by • 0
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4
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1.3k
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EPIC or EPICv2 demo data of brain samples. FlowSorted.DLPFC.EPIC Availability?
DNAMethylation MethylationArray methylationArrayAnalysis illumina
14 months ago mikat • 0
2
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4
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1.5k
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Correct the batch effect in methylation analysis in R
BatchEffect limma methylationArrayAnalysis
updated 16 months ago by 52k • written 16 months ago by • 0
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6
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1.4k
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Methylation data analysis
MethylationArrayData methylationArrayAnalysis
17 months ago aldea85 • 0
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1.2k
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EPIC v2 demo data from blood samples
MethylationArray methylationArrayAnalysis
updated 18 months ago by 68k • written 18 months ago by • 0
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3
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1.1k
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Merging Methylation data (M-values) with phenotypic data
MethylationArrayData methylationArrayAnalysis
updated 20 months ago by 68k • written 20 months ago by • 0
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1
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3.8k
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Warning messages in detecting P-values
minfiDataEPIC methylationArrayAnalysis
updated 21 months ago by ★ 4.8k • written 21 months ago by ▴ 20
1
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2
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963
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edgeR, RRBS Library size preparation
RRBSdata edgeR methylationArrayAnalysis
21 months ago Krzysztof • 0
1
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2
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1.2k
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How to perform a methylation analyisis from m values
MethylationArrayData methylationArrayAnalysis
22 months ago Irene • 0
1
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1
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885
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urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 24 months ago by ▴ 40 • written 24 months ago by • 0
2
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6
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1.7k
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cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 24 months ago by ▴ 230 • written 24 months ago by • 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
2.0 years ago • updated 23 months ago arisarkar88 ▴ 40
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1
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901
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LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 2.1 years ago by 52k • written 2.1 years ago by • 0
0
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955
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specifying comparison of interest in the minfi Bumhunter function
limma bumphunter methylationArrayAnalysis minfi
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
5
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1
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2.0k
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Support for new Illumina human methylation EPIC array v2
human methylationArrayAnalysis
updated 15 months ago by • 0 • written 2.1 years ago by ▴ 80
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4
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1.7k
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Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 2.1 years ago by 68k • written 2.1 years ago by • 0
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5
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2.0k
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minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 2.1 years ago by • 0
0
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1
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923
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Job: 'Omics data analyst for HPCBio, University of Illinois
SingleCell rnaseq methylationArrayAnalysis Spatial
written 2.4 years ago by ★ 2.0k
0
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3
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4.2k
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Error: BiocParallel errors 1 remote errors, element index: 1 506 unevaluated and other errors first remote error:
methylationArrayAnalysis
updated 21 months ago by • 0 • written 2.5 years ago by • 0
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7
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3.5k
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ERROR happens when install "DSS" package
methylationArrayAnalysis ChAMP DMP DSS
updated 2.5 years ago by 68k • written 2.9 years ago by • 0
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981
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filtering options in RnBeads for array data
Epigenetics RnBeads MethylationArrayData methylationArrayAnalysis
3.1 years ago Jitendra ▴ 10
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0
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1.2k
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getsex function error.
QualityControl methylationArrayAnalysis
3.2 years ago zusman • 0
2
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4
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1.7k
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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
3.2 years ago Jojo • 0
0
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6
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4.4k
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Merge problems in R
methylationArrayAnalysis ChAMP MethylationArrayData
3.8 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
4.0 years ago Kesava • 0
1
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8
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1.9k
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EPIC array single replicate pipeline?
minfi methylationArrayAnalysis
4.1 years ago • updated 4.0 years ago chay • 0
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2
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1.7k
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champ.SVD() : Error in while (step == 0) { : missing value where TRUE/FALSE needed
methylationArrayAnalysis EPICarray ChAMP Champ.SVD
4.0 years ago arisarkar88 ▴ 40
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2
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1.1k
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Error myDMP not found
Illumina methylationArrayAnalysis ChAMPdata ChAMP
4.2 years ago sissialva21 • 0
2
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7
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3.4k
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Blood cell composition adjustment in methylation EPIC array: ChAMP
MethylationArray methylationArrayAnalysis ChAMP
updated 18 months ago by • 0 • written 4.4 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 4.5 years ago by 68k • written 4.5 years ago by • 0
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Comment: RNA Seq using Lrt by Rob • 0
So if I have understood what you have said : If i want to see if Day (time) has an effect / is being tested - then the reduced model should…
Comment: How to convert transcript counts to gene counts in R? by ben • 0
Simply summing transcripts by gene is sufficient for use with DESeq2. [sprunki clicker][1] [1]: https://sprunkiclicker.com/
Answer: EuroBioC2024 abstract submission is open! by Ali • 0
[Promo products][1] are a smart way to boost visibility, especially with exciting updates like *News: EuroBioC2024 abstract submission is o…
Answer: ROAST for small sets by Gordon Smyth 52k
The p-values from `mroast` will be the same (up to sampling variability associated with random rotations) regardless of whether you test al…
Comment: FlowSOM library requires igraph but igraph does not install by Szabolcs • 0
The R/igraph Installation FAQ covers most issues: https://r.igraph.org/articles/installation-troubleshooting.html
Votes
Answer: ROAST for small sets
Answer: ROAST for small sets
A: conceptual question about FDR, FDR adjusted p-value and q-value
Comment: edgeR::cpm() results in negative values from raw counts of 0
Comment: edgeR::cpm() results in negative values from raw counts of 0
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