Bioconductor DESeq2

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DESeq2

updated 3 days ago by James W. MacDonald 68k • written 3 days ago by Lennie • 0

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395

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DESeq2 TechnicalReplicates RNASeq

written 5 days ago by questionanswer • 0

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390

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edgeR DESeq2

updated 6 days ago by Michael Love 43k • written 14 days ago by rohitsatyam102 ▴ 20

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DESeq2 DEXSeq

updated 4 days ago by Esperan • 0 • written 18 days ago by Elijah • 0

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RNASeq DESeq2

updated 2 days ago by Michael Love 43k • written 2.8 years ago by Victor ▴ 10

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deseq2 multiple time points time course casecontrol model design

updated 2 days ago by Michael Love 43k • written 7.7 years ago by heikki.sarin ▴ 10

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17k

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deseq2

10.5 years ago • updated 2 days ago Michael Love 43k

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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…

Comment: DESeq2 model - How to test case/control time course model when taking account wi by Michael Love 43k

I'd recommend working with a local statistician or someone familiar with linear models in R. I have to reserve my time on the support site …

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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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