Bioconductor Blocking

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1.2k

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voom blocking limma

updated 23 months ago by Gordon Smyth 52k • written 23 months ago by Gerhard Thallinger ▴ 180

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1.0k

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edgeR blocking

updated 4.3 years ago by Yunshun Chen ▴ 900 • written 4.3 years ago by Molly • 0

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1.3k

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diffbind blocking model

updated 4.8 years ago by Rory Stark ★ 5.2k • written 5.9 years ago by melnuesch ▴ 10

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1.9k

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edger limma paired blocking ruvseq

updated 5.3 years ago by Gordon Smyth 52k • written 5.3 years ago by ScA • 0

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3.3k

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limma repeated measurements blocking random effects

updated 5.5 years ago by Gordon Smyth 52k • written 5.5 years ago by Jane ▴ 10

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4.5k

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limma edger blocking paired samples

updated 6.8 years ago by Gordon Smyth 52k • written 6.8 years ago by anou ▴ 10

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1.1k

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diffbind differential binding analysis blocking

updated 7.6 years ago by Rory Stark ★ 5.2k • written 7.7 years ago by zhangly811 • 0

7 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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