Bioconductor Methylationepic

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methylationEPIC minfi microarray epigenetics EPIC

5.8 years ago firestar ▴ 20

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microarray methylationEPIC epigenetics minfi EPIC

5.8 years ago firestar ▴ 20

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ChAMP champ 2.9.10 methylationepic

6.8 years ago • updated 6.7 years ago david.ch • 0

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rnbeads methylation methylationepic dna methylation

6.8 years ago gabrielrfries • 0

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champ methylationepic

updated 6.9 years ago by Yuan Tian ▴ 290 • written 6.9 years ago by csappleby-mallinder1 • 0

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ChAMP methylationepic epicarray epigenomics

updated 7.2 years ago by rcavalca ▴ 140 • written 7.2 years ago by karthikrpad ▴ 10

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minfi methylationepic illuminahumanmethylationepicanno.ilmn10b.hg19 SNP

7.5 years ago Ellen O • 0

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methylation illumina EPIC methylationepic idat

updated 7.6 years ago by Guido Hooiveld ★ 4.1k • written 7.6 years ago by Ellen O • 0

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methylation epic microarray minfi methylationepic

7.8 years ago nhejazi • 0

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shinymethyl minfi epic microarray methylationepic qualitycontrol

7.8 years ago chelsey.ju • 0

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minfi illumina methylationEPIC densityplot

8.0 years ago annabelle.congras ▴ 10

11 results • Page 1 of 1

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Answer: Cross-validation with multiple control subgroups in limma by Gordon Smyth 52k

limma doesn't do cross-validation or resampling. Like most classical linear modeling procedures in statistics, limma uses a statistical mod…

Comment: Issues with seqlevelsStyle when making custom txdb objects for genomes/annotatio by Robert Castelo ★ 3.4k

Hi Hervé, thank you very much for your input into how to properly build and manage TxDb objects. gDNAx has two main inputs, one or more BAM…

Comment: Biostrings: Error writing long reads (>200 kbps) with writeQualityScaledXStringS by Aidan ▴ 60

Quick update: this is fixed in a branch awaiting PR to Biostrings (https://github.com/Bioconductor/Biostrings/pull/122). Should be in `deve…

Answer: Can DESeq2's design compensate for sequencing experimental design shortcomings? by Michael Love 43k

For statistical analysis plans, I recommend working with a local statistician or someone familiar with linear models in R. I have to reserv…

Comment: how should I apply "cpg.annotate" to TCGA methylation data in hg38 for HM450K? by xiaofeiwang198266 • 0

Thanks for your reply!

Votes

C: edgeR and lack of counts ID on CPM matrix

A: DESeq2 Following RSEM

A: importing RSEM data into DESeq2

A: Expected counts from RSEM in DESeq2

A: Using RSEM reads for DESeq2

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