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Answer: [limma::kegga] Pathway names all NA
This is due to a change in the KEGG website. I updated limma a month ago to fix the problem, so just reinstall limma and the problem will b…
Comment: Does DiffBind make consensus peaks sets for samples from a given condition (e.g.
That's great. Thank you for clarifying the confusion. Cheers,
Comment: minfi support of illumina Infinium methylationEPIC v2.0
Tank you James. All fine, but for preprocessIllumina, which apparently won't work
Comment: Time-course, comparison of two groups
As an exercise I've tried to analyze simpler but similar experiment. The data is from real experiment (E-MTAB-11224) comparing wild type an…
Answer: How to getting synonymous SNPs from BiomaRt before timing out?
James W. MacDonald
Asking for multiple things at once will tend to blow out your results, as you will get every possible combination. ``` > options(timeou…
Answer: minfi support of illumina Infinium methylationEPIC v2.0
Answer: Are polynomial contrasts for a time factor possible in DESeq2?
Are polynomial contrasts for a time factor possible in DESeq2?
Answer: How to deal with the negative values from EBPlusPlusAdjustPANCAN_IlluminaHiSeq_R
Comment: TxDB.Hsapiens.UCSC.hg38.knownGene with locateVariants() identifying SNPs from va
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