Showing : MethylationArray • reset
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Correlation threshold
MethylationArray methylationArrayAnalysis StatisticalMethod
9 months ago user_bioinfo • 0
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371
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Methylation data - different probes are classified differently based on transcript? (Illumina methylation arrays, using minfi)
minf minfiDataEPIC MethylationArrayData MethylationArray EPICv2manifest
11 months ago charlie.wright • 0
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405
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Unable to find sample sheet file for ChAMP methylation data analysis
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 11 months ago by 68k • written 11 months ago by • 0
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2
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591
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Epic v2 Annotation CpG_maf source?
MethylationArray methy EPICv2manifest
13 months ago Meghan • 0
2
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1
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811
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Question: How to Set Up Contrasts for Case-Control Analysis in Limma While Adjusting for Covariates?
MethylationArray EpigeneticsWorkflow limma Regression
updated 16 months ago by 68k • written 16 months ago by ▴ 20
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2
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1.2k
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In the sesame package, what does the estimate output mean from testEnrichment()
MethylationArray methylation sesame methylationArrayAnalysis
16 months ago ramiro.barrantes ▴ 10
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733
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Annotating DMRs
MethylationArray MethylationArrayData methylationArrayAnalysis
updated 16 months ago by 68k • written 16 months ago by ▴ 10
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1
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846
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Empty Results from champ.DMP Despite Expected Output
MethylationArray ChAMP R
updated 16 months ago by 68k • written 16 months ago by • 0
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3
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967
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Open Sesame: in what genes are my differentially methylated probes!!
MethylationArray sesameData sesame
updated 13 months ago by • 0 • written 16 months ago by ▴ 10
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2
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1.8k
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save.rnb.set warnings when trying to save rnb.set
RnBeads RnBeads.hg19 MethylationArray
updated 6 months ago by • 0 • written 17 months ago by • 0
0
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1
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974
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ChAMP analysis Error: Meth Matrix and UnMeth Matrix seems not paried correctly AND incomplete final line
MethylationArray methylationArrayAnalysis ChAMP
updated 13 months ago by • 0 • written 18 months ago by • 0
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2
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2.3k
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Batch effect correction: methylome data
sesame BatchEffect MethylationArray
updated 20 months ago by ▴ 20 • written 20 months ago by • 0
3
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2
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1.2k
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limma Intercept vs No-intercept models completely changing DMR results?
limma DMRcate MethylationArray EPICV2
updated 19 months ago by 53k • written 20 months ago by • 0
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2
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2.6k
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Get genomic coordinates of CpGs sites (chromosomes, genomic position)
GenomeWideAssociation SequenceAnnotation MethylationArray GenomicDistributionsData
20 months ago Yveto • 0
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0
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640
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TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
22 months ago Giovanni Calice ▴ 160
1
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3
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2.2k
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Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation GO MethylationArray missMethyl EPICv2
22 months ago • updated 15 months ago s.malik • 0
0
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11
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2.0k
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Strange logFC values in differential methylation site anslysis
edgeR MethylationArray
updated 22 months ago by 53k • written 22 months ago by • 0
1
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7
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1.8k
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Library size normalization in methylation count analysis
edgeR MethylationArray
updated 14 months ago by • 0 • written 22 months ago by • 0
1
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1
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1.7k
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Need Advice: Issue with ChAMP Analysis - Meth and UnMeth Matrix Pairing Error
MethylationArray methylationArrayAnalysis ChAMP
updated 22 months ago by 68k • written 22 months ago by • 0
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7
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1.4k
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error in reading idat files and creating rgset
minfi MethylationArray
updated 23 months ago by 68k • written 23 months ago by • 0
1
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2
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1.2k
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How to get normalized values for methylation counts in edgeR
edgeR MethylationArray
23 months ago mico • 0
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4
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1.7k
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EPIC or EPICv2 demo data of brain samples. FlowSorted.DLPFC.EPIC Availability?
DNAMethylation MethylationArray methylationArrayAnalysis illumina
23 months ago mikat • 0
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1
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1.4k
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EPIC v2 demo data from blood samples
MethylationArray methylationArrayAnalysis
updated 2.3 years ago by 68k • written 2.3 years ago by • 0
5
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5
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1.6k
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limma output for epic array methylation data
linearregression epicarray MethylationArray limma
2.4 years ago Jitendra ▴ 10
1
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1
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1.1k
views
urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 2.7 years ago by ▴ 40 • written 2.7 years ago by • 0
2
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6
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2.0k
views
cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 2.7 years ago by ▴ 230 • written 2.7 years ago by • 0
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1
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1.1k
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LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 2.8 years ago by 53k • written 2.8 years ago by • 0
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4
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2.0k
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Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 2.8 years ago by 68k • written 2.8 years ago by • 0
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5
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2.3k
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minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 2.9 years ago by • 0
2
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1
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1.1k
views
Limma model orientation
limma methylation MethylationArray
updated 3.7 years ago by 68k • written 3.7 years ago by • 0
2
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2
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2.0k
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Limma vs. lm for methylation data
limma MethylationArrayData MethylationArray
3.8 years ago • updated 3.7 years ago fluentin44 • 0
0
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0
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1.4k
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Surrogate variable, celltype composition correction and overfitting in DNA methylation data
sva limma methylation MethylationArray
5.0 years ago epibio ▴ 10
6
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6
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2.5k
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Limma Paired Analysis - Force intercept to 0
MethylationArray limma
5.0 years ago • updated 4.9 years ago MoltenLight ▴ 10
2
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7
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4.0k
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Blood cell composition adjustment in methylation EPIC array: ChAMP
MethylationArray methylationArrayAnalysis ChAMP
updated 2.3 years ago by • 0 • written 5.1 years ago by ▴ 20
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0
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958
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Diffrential Gene expression in a group of specific methylated prometor patience
GeneExpression methyAnalysis MethylationArray
5.2 years ago coobzie • 0
35 results • Page 1 of 1
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Comment: Incosistencies in buildSNNGraph() function by ATpoint ★ 5.0k
Just played with this a bit and I think it comes down to not having a fixed seed before running the leiden thingy. Same goes for PCA and UM…
Answer: Incosistencies in buildSNNGraph() function by Aaron Lun ★ 29k
The most obvious thing that comes to mind is the RNG seed. `cluster_leiden()` does some random number generation, somewhere deep in the **i…
Comment: Opportunity to host EuroBioC2026 Preconference workshops! by TikTsokaas33ocissalpc • 0
Thank you for sharing the EuroBioC2026 workshop opportunity. I m interested in hosting a hands on session teaching reproducible data analys…
Comment: Ensembl plants at annotationHub? by jwp48 • 0
Nope I don't mind haha! Anyway thanks so much! Thats super kind of you!
Answer: Combining two proteomics datasets with limpa by Gordon Smyth 53k
Hi Andrew, We don't have that much experience combining different datasets with limpa yet, but my feeling is that the same DPC should be u…
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Answer: Incosistencies in buildSNNGraph() function
Answer: Where do the filename come from in the LOLA datasets?
Bioconductor Maintainer Application
A: What is logFC and "B" in methylation analysis ??
limma moderated t-statistics and B-statistics
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