Bioconductor Watermelon

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820

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DNAMethylation wateRmelon Computation minfi

2.6 years ago calen.p.ryan • 0

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1.4k

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wateRmelon Illumina EPIC pfilter

updated 5.3 years ago by lschal • 0 • written 5.3 years ago by anne-kristin.stavrum • 0

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1.9k

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wateRmelon minfi methylation pfilter preprocessNoob

updated 5.6 years ago by tgorri ▴ 10 • written 5.6 years ago by sara.blocquiaux • 0

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1.4k

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methylation ENmix BMIQ wateRmelon

6.1 years ago moldach ▴ 20

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1.8k

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minfi methylumi watermelon

8.1 years ago Tom ▴ 10

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2.7k

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wateRmelon methylation EPIC normalization

8.2 years ago Wade Davis ▴ 60

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1.8k

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limma watermelon methylumi bmiq

updated 8.3 years ago by tgorri ▴ 10 • written 8.3 years ago by poojitha.stemcell ▴ 10

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2.2k

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minfi watermelon cancer 450k normalization

updated 9.7 years ago by Kasper Daniel Hansen ★ 6.5k • written 9.7 years ago by metamaden ▴ 10

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2.5k

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watermelon betaqn pfilter getProbeInfo minfi

10.1 years ago gctromp ▴ 10

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2.6k

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convert lumi methylumi minfi wateRmelon convert lumi methylumi minfi wateRmelon

updated 11.4 years ago by Tim Triche ★ 4.2k • written 11.4 years ago by Martin Rijlaarsdam ▴ 190

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Comment: DESeq2 estimateSizeFactors with control genes by sofia.rigou • 0

I am also trying to use this function to estimate sizefactor based on RT-dPCR data but estimateSizeFactor only takes integers. Should I mul…

Comment: DiffBind custom normalization factor by Abbie • 0

Hello! Thanks so much for adding dba.normalize and all the documentation in the manual! I'm hoping I can ask a follow-up question here. I…

Answer: CpGs with genomic positions greater than the chromosome size in EPICv2? by James W. MacDonald 68k

All of the annotation packages provided by Bioconductor are simply repackaging of existing data from one or more sources. In this case, the…

Comment: Using TPM from tximport of Salmon output for singscore by Kent • 0

Thank you for the suggestions Michael. Would you say that after filtering out the low count genes, `rlog(counts, blind = T)` is doing the s…

Comment: Using TPM from tximport of Salmon output for singscore by Michael Love 43k

For clustering generally we recommend `vst()` see the workflow for example. For working with individual samples, I can see how a scaling/t…

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clusterProfiler-GO enrichment Error

A: Machine learning in R book

Data preparation and Machine learning on time course RNAseq data

Answer: Use of org.Rn.eg.db with GRCr8 reference genome

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