Showing : methylationepic • reset
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Beta values and M values cluster differently
methylationEPIC minfi microarray epigenetics EPIC
5.8 years ago firestar ▴ 20
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Best normalisation method
microarray methylationEPIC epigenetics minfi EPIC
5.8 years ago firestar ▴ 20
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could not find function "champ.load"
ChAMP champ 2.9.10 methylationepic
6.8 years ago • updated 6.7 years ago david.ch • 0
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differential methylation analysis with RnBeads
rnbeads methylation methylationepic dna methylation
6.8 years ago gabrielrfries • 0
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2.2k
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ChAMP Methylation analysis error code "could not find function champ.load"
champ methylationepic
updated 6.9 years ago by ▴ 290 • written 6.9 years ago by • 0
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Error while using champ.svd() function in subset of data
ChAMP methylationepic epicarray epigenomics
updated 7.2 years ago by ▴ 140 • written 7.2 years ago by ▴ 10
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Error when changing the database for minfi dropLociWithSnps
minfi methylationepic illuminahumanmethylationepicanno.ilmn10b.hg19 SNP
7.5 years ago Ellen O • 0
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Illumina methylationEPIC demo data in IDAT format?
methylation illumina EPIC methylationepic idat
updated 7.6 years ago by ★ 4.1k • written 7.6 years ago by • 0
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minfi "mapToGenome" dimension error
methylation epic microarray minfi methylationepic
7.8 years ago nhejazi • 0
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Shinymethyl 850K Array quality control signal cutoffs
shinymethyl minfi epic microarray methylationepic qualitycontrol
7.8 years ago chelsey.ju • 0
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MINFI missing samples in qcreports and densityplots
minfi illumina methylationEPIC densityplot
8.0 years ago annabelle.congras ▴ 10
11 results • Page 1 of 1
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Comment: Cross-validation with multiple control subgroups in limma by Ali Barry ▴ 40
Thanks so much for taking the time here, the insights are much appreciated. I suspected I'd have to ad hoc compare results if I did repeat …
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…
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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