Bioconductor QC

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632

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HTS QC

updated 5.0 years ago by shepherl 4.1k • written 5.0 years ago by Happyflower • 0

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2.2k

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flowAI flow_auto_qc QC flow cytometry

updated 5.3 years ago by gianni • 0 • written 5.3 years ago by vinko.tosevski • 0

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1.6k

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ChIP-seq ChIPQC QC

updated 5.6 years ago by zhenfeng.liu1 ▴ 20 • written 6.0 years ago by star ▴ 10

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4.3k

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scater scran singlecellexperiment normalize qc

updated 2.9 years ago by Dayme • 0 • written 5.9 years ago by kushshah ▴ 10

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1.7k

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singlecellexperiment rpkm normalization qc

updated 5.9 years ago by Aaron Lun ★ 28k • written 5.9 years ago by kushshah ▴ 10

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1.7k

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qc qualitycontrol arrayqualitymetrics mouse gene st 2.0 affymetrix

updated 7.5 years ago by James W. MacDonald 68k • written 7.5 years ago by n.lu • 0

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1.9k

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updated 9.3 years ago by James W. MacDonald 68k • written 9.3 years ago by libya.tahani • 0

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3.6k

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ChIPSeq QC ChIPQC

updated 9.6 years ago by Thomas Carroll ▴ 420 • written 9.6 years ago by Philip Lijnzaad ▴ 160

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2.2k

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affy qc simpleaffy HTA

updated 10.0 years ago by James W. MacDonald 68k • written 10.0 years ago by Guilherme Rocha ▴ 40

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1.4k

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beadarray qc

10.1 years ago meeta.mistry ▴ 30

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4.1k

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exactSNP qc variantannotation

updated 10.3 years ago by Wei Shi ★ 3.6k • written 10.3 years ago by daniel.silvestre ▴ 100

11 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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