Showing : DNAMethylation • reset
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normalizatino of dna methylation EPIC data
DNA minfiData minfiDataEPIC DNAMethylation minfi
11 months ago user_bioinfo • 0
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Batch Correction while implementing QSEA package
qsea MEDIPS MEDIPSData DNAMethylation
11 months ago User3088 • 0
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Job: Postdoctoral Research Associate in Computational Epigenomics
Phd SingleCell DNAMethylation Shanghai JobPosting
16 months ago xiaolong • 0
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Methylation Analysis experiment design using Limma
DNAMethylation limma methylationArrayAnalysis
21 months ago hortense96 • 0
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DMRcate error need at least two non-NA values to interpolate
DNAMethylation DMRcate
21 months ago Macsue • 0
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unable to access Annotationhub latest record
DNAMethylation AnnotationHub EPICv2manifest annotation
updated 21 months ago by ▴ 230 • written 21 months ago by • 0
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Error in GOmeth function of missMethyl when EPICv2 annotation is used
DNAMethylation GO MethylationArray missMethyl EPICv2
22 months ago • updated 16 months ago s.malik • 0
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Seeking Strategies for Managing Duplicate CpG Entries in EPIC v2 Manifest
DNAMethylation EPICv2 IlluminaHumanMethylationEPICmanifest
updated 23 months ago by 68k • written 23 months ago by ▴ 20
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1.5k
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limma design model for categorical variable
DNAMethylation limmaGUI biostatistics limma
updated 23 months ago by 53k • written 23 months ago by ▴ 10
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Sample-specific methylation values using QSEA
DNAMethylation cfMeDIP-seq cfDNA qsea
23 months ago • updated 11 months ago User3088 • 0
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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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topGO() analysis of DMPs in missMethyl methylation analysis
DNAMethylation missMethyl Pathways
2.7 years ago Grace • 0
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6
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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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No enriched GO terms CpGs
DNAMethylation missMethyl
updated 2.9 years ago by ▴ 40 • written 2.9 years ago by • 0
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A survey of computational setups for Illumina Infinium DNA methylation EPIC array pipeline
DNAMethylation wateRmelon Computation minfi
3.4 years ago calen.p.ryan • 0
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Annotation using QSEA package
DNAMethylation QSEA MEDIP
4.6 years ago rtrivedi1 ▴ 10
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Why the LogFC and delta-beta value are different in ChAMP
DNAMethylation ChAMP
updated 23 months ago by • 0 • written 5.1 years ago by • 0
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Comment: DESeq2 - how many surrogate variables from svaseq, use of lfcshrink by ja569116 • 0
Hi @atpoint Thanks for the information. Could you please expand on when to use adjusted p-values vs nominal p-values. My understanding was …
Answer: limpa analysis advice by Gordon Smyth 53k
It is actually very hard to estimate the DPC from observed data, because the curve is function of unobserved intensities rather than a func…
Answer: When to use edgeR or limma by Gordon Smyth 53k
The short answer is that we generally prefer edgeR for applications with lots of small counts and limma for complex designs with random eff…
Comment: limpa-blank normalization and Spectronaut's PTM stoichiometry by Gordon Smyth 53k
I updated the above answer today.
Answer: When to use edgeR or limma by James W. MacDonald 68k
I would use edgeR's quasi-likelihood model for any analysis with a smaller number of observations (like 3 vs 3 or similar), but if you have…
Votes
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
Answer: When to use edgeR or limma
A: deseq2 - paired samples in 2 sequencing types with very different library sizes
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