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332

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DESeqDataSetFromMatrix dds DESeq2

updated 7 months ago by James W. MacDonald 65k • written 7 months ago by naomi.croft • 0

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462

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Celegans DESeq2 dds Errorinseq_len(length(idx)-1)

updated 17 months ago by James W. MacDonald 65k • written 17 months ago by Enzo.Scifo • 0

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1.1k

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deseq2 cooks distance dds

updated 5.6 years ago by Michael Love 41k • written 5.6 years ago by ipso • 0

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981

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deseq2 dds RPKM

updated 6.0 years ago by Michael Love 41k • written 6.0 years ago by harry.horsnell.17 • 0

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2.2k

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deseq2 rld pheatmap dds

updated 6.4 years ago by Michael Love 41k • written 8.6 years ago by rahel14350 ▴ 10

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4.9k

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deseq2 DDS

updated 6.6 years ago by Michael Love 41k • written 6.6 years ago by rrcutler ▴ 70

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4.7k

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Deseq2 dds confounders

updated 8.3 years ago by Michael Love 41k • written 8.3 years ago by colaneri ▴ 30

7 results • Page 1 of 1

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Answer: RNAseq:Technical replicates from different batches by Gordon Smyth 50k

I am not entirely clear what you mean by "technical" replicates in this case. Are they resequencing of the same RNA samples or are they fre…

Comment: DMR.Plot shows error "Error in simpleLoess(y, x, w, span, degree = degree, param by russ.bainer ▴ 10

Hi, I'm hitting this too. As far as I can tell my DataTrack is fine, but perhaps I am missing something. Notably the same code works on o…

Comment: The difference when using Limma compare between 3 conditions vs 2 conditions by Chris • 0

Hi Robert, If I don't want to use all pathway in c2 gene set but only a few pathways of interested, how can I do that? So we try to get a …

Comment: How to retrieve detailed regression results from deseq2 by Weiqian ▴ 10

Hi Michael, thanks for the answer! I'll have a look : )

Comment: DESeq filtering specific to contrasts by Michael Love 41k

It will likely not filter it out, but really the per-dataset details would affect the results.

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Installing/switching between versions of R/Rstudio/Bioconductor on personal machine (Linux | Ubuntu)

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

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