Bioconductor BiocFileCache

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rBLAST BiocFileCache

updated 9 days ago by shepherl 4.1k • written 10 days ago by Matthew Thornton ▴ 380

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AnnotationHub BiocFileCache

8 months ago Lluís Revilla Sancho ▴ 760

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BiocFileCache AnnotationHub ExperimentHub

16 months ago • updated 10 months ago shepherl 4.1k

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BiocFileCache

2.8 years ago • updated 2.4 years ago kent.riemondy ▴ 20

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BiocFileCache biomaRt

updated 2.9 years ago by Martin Morgan 25k • written 2.9 years ago by ZheFrench ▴ 60

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856

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BiocFileCache

updated 3.5 years ago by Mike Smith ★ 6.6k • written 3.5 years ago by pierrick.roger • 0

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tximeta BiocFileCache

updated 3.9 years ago by Michael Love 43k • written 3.9 years ago by judith.risse • 0

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BiocFileCache AnnotationHub ExperimentHub cache

3.9 years ago shepherl 4.1k

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BiocFileCache

updated 5.0 years ago by shepherl 4.1k • written 5.0 years ago by Qiang ▴ 80

9 results • Page 1 of 1

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Comment: how many significant figures are there in DESeq2 output by ATpoint ★ 4.7k

If you want consistency then use a fixed software environment like Docker, wirh fixed code and thresholds that make sense. Rounding to near…

Comment: Compare TCGA-PAAD with GTEx gene expression by Jane • 0

why aren't there any answers?

Comment: Too many significant genes when integrating gtex and tcga by Jane • 0

I encountered the same issue: too many DEGs after limma analysis. It is sad that until today we can still see the paper published where GTE…

Comment: how many significant figures are there in DESeq2 output by Matthew McCormack ▴ 180

Thank you for your reply. It is good to know that cutoff of 0.05 means less than 0.05. My concerns are about consistency and reproducibili…

Comment: DiffBind edgeR normalization --- why are the normalization factors all equal to by ATpoint ★ 4.7k

No, normalization factors from edgeR rather than size factors from DESeq2 are not proportional, it's a different concept and implementation…

Votes

A: Unbalanced experiment with multiple samples from each patient.

Unbalanced experiment with multiple samples from each patient.

Answer: Vertical line at A=0, nothing else, on MA plot

Answer: GSVA Error Code "Calling gsva(expr=., gset.idx.list=., method=., ...) is defunct

Answer: Group-specific condition effects with individuals nested: matrix is not full ra

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