Bioconductor MakeContrasts

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designmatrices differentialexpression makeContrasts limma model.matrix

2.1 years ago mohammedtoufiq91 ▴ 10

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makeContrasts edgeR

updated 2.7 years ago by Steve Lianoglou ★ 13k • written 2.7 years ago by HS ▴ 10

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874

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microarray dge matrix makecontrasts limma

updated 3.8 years ago by Gordon Smyth 50k • written 3.8 years ago by June. ▴ 10

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1.9k

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diffrential expression limma makeContrasts

updated 5.8 years ago by Gordon Smyth 50k • written 5.8 years ago by S.Bamopoulos ▴ 10

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932

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rnaseq edgeR makecontrasts interactions

updated 5.8 years ago by Aaron Lun ★ 28k • written 5.9 years ago by David R ▴ 90

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limma model.matrix makecontrasts

updated 5.9 years ago by Gordon Smyth 50k • written 5.9 years ago by enricoferrero ▴ 660

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734

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deseq2 makecontrasts

updated 6.4 years ago by Michael Love 41k • written 6.4 years ago by samuel.quentin • 0

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contrast matrix toptable makecontrasts differential gene expression

6.6 years ago stinehedensted • 0

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limma contrast missing data lmfit makecontrasts

updated 6.7 years ago by Gordon Smyth 50k • written 6.7 years ago by wewolski ▴ 10

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limma toptable makecontrasts contrast matrix

updated 6.8 years ago by Ryan C. Thompson ★ 7.9k • written 6.8 years ago by hoe • 0

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rnaseq edger makecontrasts

updated 6.9 years ago by Aaron Lun ★ 28k • written 6.9 years ago by wangzhang1988 • 0

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limma model.matrix makecontrasts

7.2 years ago TFony ▴ 10

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limma design matrix makecontrasts multiple comparisons

7.2 years ago annabelle.congras ▴ 10

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edger makecontrasts timecourse

updated 7.5 years ago by Ryan C. Thompson ★ 7.9k • written 7.5 years ago by aec ▴ 90

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edger makecontrasts

7.9 years ago xiaoaozqd • 0

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limma microarray interaction model multiple factor design makeContrasts

updated 8.2 years ago by Aaron Lun ★ 28k • written 8.2 years ago by svlachavas ▴ 830

16 results • Page 1 of 1

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Comment: Timecourse RNASeq analysis by Aurora • 0

I managed to run ImpulseDE2 as I am interested in getting significant gene changes over time. Now I would like to run deseq as well and com…

Comment: Once again a "Model matrix not full rank" by arfranco ▴ 130

But.. How to run a temporal assay?

Comment: Deseq2 and Normalization of RNA sequencing data by kcarey • 0

Noise in terms of expression...to make sure that the information reported is not due to artifacts and actually expression. When I had FPKM …

Answer: NEED FOR NESSASORY HELP by Gordon Smyth 50k

Is this quesion related to your earlier question? https://support.bioconductor.org/p/9157127/ If you've already done an edgeR analysis, yo…

Answer: Gene-by-sample covariates in limma by Gordon Smyth 50k

Your first method would be valid if, instead of taking ratios, you instead used the differences between the log-transformed 13C and 12C int…

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Bioconductor 3.19 is Released!

A: Error in DESeqDataSet : some values in assay are not integers

Bioconductor 3.19 is Released!

Answer: DEseq2 coefficient

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