Bioconductor Nested

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DESeq2 multifactorial nested

updated 2.5 years ago by Basti ▴ 780 • written 2.5 years ago by jd • 0

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nested DESeq2

updated 3.6 years ago by Michael Love 43k • written 3.7 years ago by yampolsk • 0

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1.5k

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deseq2 Phyloseq Nested

updated 5.4 years ago by Michael Love 43k • written 5.4 years ago by mpuli011 • 0

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1.2k

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deseq2 Paired Nested

updated 5.6 years ago by Michael Love 43k • written 5.6 years ago by julia.chariker ▴ 10

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1.5k

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deseq2 nested de

updated 5.8 years ago by Michael Love 43k • written 5.8 years ago by gaio.transposon • 0

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1.7k

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edgeR nested glm glmQLFit

updated 6.4 years ago by Aaron Lun ★ 29k • written 6.4 years ago by jcalis ▴ 10

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edger nested design matrix differential expression

updated 10.5 years ago by Aaron Lun ★ 29k • written 10.5 years ago by Mauve • 0

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2.3k

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edger nested estimatedispersions

10.6 years ago Mauve • 0

8 results • Page 1 of 1

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Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200

I would like to clarify whether the command `res <- results(dds, name = "phaseLP.conditionTreated")` is the correct approach to generate …

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by James W. MacDonald 68k

Not sure I understand. You ask how to do something and then show how one would do so.

Comment: DiffBind getting Fold values of near 0 by littlefishes20 ▴ 10

Same issues. All peaks return to a fold near 0, although they are significant when visualizing in IGV. Please find the MAplot and volcanoPl…

Comment: How to account for solvent controls in DESeq2 when comparing follicular vs lutea by snijesh ▴ 200

I have checked DEGs between Solvent Control (SC) of FP and LP and there are noticebale differences in terms of DEGs. ``` # Checking SC in …

Answer: A0A287BB68 not recognized as UNPROT key in org.Ss.eg.db using AnnotationDbi::sel by James W. MacDonald 68k

Apparently it's been over-ridden by a different UniProtKB ID ``` > select(org.Ss.eg.db, "MYH11", "UNIPROT", "SYMBOL") 'select()' retu…

Votes

How to account for solvent controls in DESeq2 when comparing follicular vs luteal phase?

Answer: How to account for solvent controls in DESeq2 when comparing follicular vs lutea

Comment: Using DESeq2 on single cell RNA Seq data of same cell type but different conditi

Can NanoString data be analyzed using DESeq2?

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