Bioconductor EPICarray

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393

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limma epicarray IlluminaHumanMethylationEPICanno.ilm10b2.hg19

written 28 days ago by Melisa Tecik • 0

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918

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stattistics epicarray Epigenetics DMRcate

updated 14 months ago by James W. MacDonald 67k • written 14 months ago by Jitendra ▴ 10

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1.2k

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linearregression epicarray MethylationArray limma

16 months ago Jitendra ▴ 10

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1.4k

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RnBeads minfiData minfi EPICarray

updated 19 months ago by Basti ▴ 780 • written 19 months ago by Jitendra ▴ 10

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1.4k

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champ.load epicarray ChAMP methylationArrayAnalysis

20 months ago • updated 19 months ago arisarkar88 ▴ 40

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1.6k

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methylationArrayAnalysis EPICarray ChAMP Champ.SVD

3.7 years ago arisarkar88 ▴ 40

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3.4k

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ChAMP methylationepic epicarray epigenomics

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

7 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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