Bioconductor Multiple comparisons

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limma illumina differential gene expression multiple comparisons design matrix

8.9 years ago • updated 8.8 years ago svlachavas ▴ 830

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3.9k

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edger design and contrast matrix multiple factor design multiple comparisons

updated 8.8 years ago by James W. MacDonald 65k • written 8.8 years ago by mouchkam ▴ 20

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edger multiple comparisons anova glm

updated 8.9 years ago by Ryan C. Thompson ★ 7.9k • written 8.9 years ago by chickenchamp4 ▴ 20

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864

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edger multifactorial design multiple comparisons differential gene expression

updated 6.1 years ago by Aaron Lun ★ 28k • written 6.1 years ago by svlachavas ▴ 830

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limma design matrix makecontrasts multiple comparisons

7.2 years ago annabelle.congras ▴ 10

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1.9k

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limma multiple factor design multiple comparisons

updated 7.6 years ago by Gordon Smyth 50k • written 7.6 years ago by xluong • 0

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2.1k

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deseq2 rnaseq contrast multiple comparisons fdrtool

7.9 years ago sebastiano.curreli • 0

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1.5k

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deseq2 multiple comparisons contrast

updated 6.4 years ago by James W. MacDonald 65k • written 6.4 years ago by serpalma.v ▴ 60

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qvalue pvalue r multiple comparisons

updated 7.3 years ago by Storey, John D. ▴ 100 • written 7.3 years ago by tombernardryan ▴ 50

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rnaseq multiple comparisons post hoc deseq2

7.9 years ago • updated 7.2 years ago laianavarromartin ▴ 20

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1.3k

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rnaseq pairwise multiple comparisons deseq2

updated 8.2 years ago by Michael Love 41k • written 8.2 years ago by hamaor • 0

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1.8k

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deseq2 padj multiple comparisons differential gene expression

updated 7.1 years ago by Michael Love 41k • written 7.1 years ago by tarun2 • 0

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924

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deseq2 deseq rna-seq multiple comparisons

updated 5.8 years ago by Michael Love 41k • written 5.8 years ago by rbronste ▴ 60

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3.4k

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deseq2 multiple comparisons

8.9 years ago annalisa.giampetruzzi • 0

14 results • Page 1 of 1

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Answer: Dominance Index for Shotgun Metagenomics Data by Leo Lahti ▴ 40

1. Note that Simpson's dominance index (\lambda) is a different index than inverse Simpson (1/\lambda) or reciprocal Simpson (1-\lambda). T…

Comment: Math expression in shapeCustom legend in EnhancedVolcano by pl23 • 0

Thank you very much - that worked perfectly! Word of warning to those who try this: it screws up the other legends because of the markdown …

Answer: PCA plot suggestions by Michael Love 41k

For help with interpretation and design of analysis, I recommend working with a local statistician. Due to time restrictions, I can only…

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length by ussarizona ▴ 10

Hi Michael, Yes, I could figure it out what does the error mean. In my matrix I had the first colum GeneID while in my condition I only h…

Answer: Deseq2. decontXcounts not integers. Useful alternative? by Michael Love 41k

Another option would be to put the per sample estimated contamination in the design. This is for example how RUV etc help remove spurious D…

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Answer: Dominance Index for Shotgun Metagenomics Data

Answer: Math expression in shapeCustom legend in EnhancedVolcano

Comment: DESeq2 Error in `.rowNamesDF<-`(x, value = value): Invalid 'row.names' length

Comment: Deseq2. decontXcounts not integers. Useful alternative?

Comment: Opposite sign of LFC in count plots of DEGs (DESeq2)

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