Showing : MethylationArray • reset
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Batch effect correction: methylome data
sesame BatchEffect MethylationArray
updated 6 weeks ago by ▴ 20 • written 6 weeks ago by • 0
3
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2
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530
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limma Intercept vs No-intercept models completely changing DMR results?
limma DMRcate MethylationArray EPICV2
updated 29 days ago by 51k • written 8 weeks ago by • 0
1
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2
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433
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Get genomic coordinates of CpGs sites (chromosomes, genomic position)
GenomeWideAssociation SequenceAnnotation MethylationArray GenomicDistributionsData
8 weeks ago Yveto • 0
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206
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TCGAbiolinks STAD project 450k Methylation Beta Value data
MethylationArray normalize450K TCGAbiolinks Normalization MethylationArrayData
3 months ago Giovanni Calice ▴ 160
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1
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380
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Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation GO MethylationArray missMethyl EPICv2
updated 3 months ago by ▴ 40 • written 3 months ago by • 0
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11
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893
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Strange logFC values in differential methylation site anslysis
edgeR MethylationArray
updated 3 months ago by 51k • written 4 months ago by • 0
1
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6
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604
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Library size normalization in methylation count analysis
edgeR MethylationArray
4 months ago mico • 0
1
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1
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464
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Need Advice: Issue with ChAMP Analysis - Meth and UnMeth Matrix Pairing Error
MethylationArray methylationArrayAnalysis ChAMP
updated 4 months ago by 66k • written 4 months ago by • 0
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7
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587
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error in reading idat files and creating rgset
minfi MethylationArray
updated 4 months ago by 66k • written 4 months ago by • 0
1
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2
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420
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How to get normalized values for methylation counts in edgeR
edgeR MethylationArray
4 months ago mico • 0
1
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4
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632
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EPIC or EPICv2 demo data of brain samples. FlowSorted.DLPFC.EPIC Availability?
DNAMethylation MethylationArray methylationArrayAnalysis illumina
4 months ago mikat • 0
0
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1
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815
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EPIC v2 demo data from blood samples
MethylationArray methylationArrayAnalysis
updated 8 months ago by 66k • written 8 months ago by • 0
5
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5
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892
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limma output for epic array methylation data
linearregression epicarray MethylationArray limma
10 months ago Jitendra ▴ 10
1
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1
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612
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urgent error for producing table of topGO() annotated DMPs methylation
methylationArrayAnalysis topGO missMethyl MethylationArrayData MethylationArray
updated 14 months ago by ▴ 40 • written 14 months ago by • 0
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6
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1.2k
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cpg.annotate() in DMRcate error
DNAMethylation methylationArrayAnalysis DMRcate MethylationArrayData MethylationArray
updated 14 months ago by ▴ 180 • written 14 months ago by • 0
0
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1
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589
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LmFit error in EPIC methylation array analysis, Minfi
methylationArrayAnalysis minfi MethylationArrayData minfiDataEPIC MethylationArray
updated 15 months ago by 51k • written 15 months ago by • 0
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4
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1.1k
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Sex estimation problems in [estimateCellCounts]: methylation arrays
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
updated 15 months ago by 66k • written 15 months ago by • 0
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5
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1.3k
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minfi error read.metharray.exp
methylationArrayAnalysis minfiData minfi MethylationArrayData MethylationArray
written 16 months ago by • 0
2
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1
reply
689
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Limma model orientation
limma methylation MethylationArray
updated 2.2 years ago by 66k • written 2.2 years ago by • 0
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2
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1.3k
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Limma vs. lm for methylation data
limma MethylationArrayData MethylationArray
2.2 years ago fluentin44 • 0
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0
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1.0k
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Surrogate variable, celltype composition correction and overfitting in DNA methylation data
sva limma methylation MethylationArray
3.4 years ago epibio ▴ 10
6
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6
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1.6k
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Limma Paired Analysis - Force intercept to 0
MethylationArray limma
3.5 years ago • updated 3.4 years ago MoltenLight ▴ 10
2
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7
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2.6k
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Blood cell composition adjustment in methylation EPIC array: ChAMP
MethylationArray methylationArrayAnalysis ChAMP
updated 8 months ago by • 0 • written 3.5 years ago by ▴ 20
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0
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645
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Diffrential Gene expression in a group of specific methylated prometor patience
GeneExpression methyAnalysis MethylationArray
3.6 years ago coobzie • 0
24 results • Page 1 of 1
Recent ...
Replies
Answer: Ranking the GSEA Results by Michael Love 42k
Some posts on this topic: https://www.google.com/search?q=site%3Asupport.bioconductor.org+GSEA+ranking+DESeq2
Answer: Advice on appropriateness of an offset in glmGamPoi/edgeR by Gordon Smyth 51k
edgeR allows observation specific offsets (as already pointed out), although I am not confident that would be a reliable solution to your p…
Comment: Research Project - Expanding search funtionality on the GEO database by gallantk5 • 0
Thank you I will take a look at those !
Comment: Research Project - Expanding search funtionality on the GEO database by gallantk5 • 0
I will send you an email and talk to my advisor about setting up a meeting. Thank you !
Comment: Research Project - Expanding search funtionality on the GEO database by Sean Davis 21k
You can use the Bioconductor Annotation packages for the Affymetrix chips of interest. - https://bioconductor.org/packages/release/BiocVie…
Votes
Answer: DESeq2 time course using fitted splines
Answer: DESeq2 time course using fitted splines
Comment: Difference between enrichGO results and Enrichr website results
Answer: Struggling to convert a large list of non-model genes into human orthologs, any
A: makeContrasts from limma overides "i" as a varible
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