Bioconductor MakeContrasts

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designmatrices differentialexpression makeContrasts limma model.matrix

3.4 years ago mohammedtoufiq91 ▴ 10

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makeContrasts edgeR

updated 4.0 years ago by Steve Lianoglou ★ 13k • written 4.1 years ago by Lina ▴ 10

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microarray dge matrix makecontrasts limma

updated 5.1 years ago by Gordon Smyth 52k • written 5.1 years ago by June. ▴ 10

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diffrential expression limma makeContrasts

updated 7.2 years ago by Gordon Smyth 52k • written 7.2 years ago by S.Bamopoulos ▴ 10

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rnaseq edgeR makecontrasts interactions

updated 7.2 years ago by Aaron Lun ★ 29k • written 7.2 years ago by David R ▴ 90

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limma model.matrix makecontrasts

updated 7.2 years ago by Gordon Smyth 52k • written 7.2 years ago by enricoferrero ▴ 680

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943

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deseq2 makecontrasts

updated 7.7 years ago by Michael Love 43k • written 7.7 years ago by samuel.quentin • 0

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contrast matrix toptable makecontrasts differential gene expression

7.9 years ago stinehedensted • 0

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limma contrast missing data lmfit makecontrasts

updated 8.0 years ago by Gordon Smyth 52k • written 8.0 years ago by wewolski ▴ 10

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limma toptable makecontrasts contrast matrix

updated 8.2 years ago by Ryan C. Thompson ★ 7.9k • written 8.2 years ago by hoe • 0

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rnaseq edger makecontrasts

updated 8.2 years ago by Aaron Lun ★ 29k • written 8.2 years ago by wangzhang1988 • 0

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limma model.matrix makecontrasts

8.5 years ago TFony ▴ 10

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limma design matrix makecontrasts multiple comparisons

8.6 years ago annabelle.congras ▴ 10

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edger makecontrasts timecourse

updated 8.8 years ago by Ryan C. Thompson ★ 7.9k • written 8.8 years ago by aec ▴ 90

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edger makecontrasts

9.3 years ago xiaoaozqd • 0

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limma microarray interaction model multiple factor design makeContrasts

updated 9.5 years ago by Aaron Lun ★ 29k • written 9.5 years ago by svlachavas ▴ 840

16 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…

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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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