Bioconductor Volcano plot

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612

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DiffBind volcano plot software error

4.5 years ago rbronste ▴ 60

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961

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volcano plot rna seq

updated 4.7 years ago by Michael Love 42k • written 4.7 years ago by adeler001 • 0

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1.3k

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Volcano plot Parameters

updated 6.7 years ago by Gordon Smyth 50k • written 6.7 years ago by Sanches • 0

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1.2k

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limma volcano plot

updated 7.1 years ago by Gordon Smyth 50k • written 7.1 years ago by yul • 0

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1.8k

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volcano plot edgr

7.3 years ago elena.capel ▴ 10

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1.3k

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microarray limma volcano plot

updated 9.6 years ago by Gordon Smyth 50k • written 9.6 years ago by jyoti_cad • 0

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Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by Wei Shi ★ 3.6k

Your bam file names should be stored in a vector and then provided to the `files` parameter.

Comment: Volcano plot of scRNA-seq data not "centered" by Michael Love 42k

Agree with @atpoint Depending on the "groups" in single cell, the question of DE can be not well defined without inserting additional inf…

Answer: Volcano plot of scRNA-seq data not "centered" by ATpoint ★ 4.2k

Sounds like a normalization problem, but I am not sure how to help with that. Indeed you can use control genes, for example use the top 20%…

Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by ATpoint ★ 4.2k

I was talking about the command line version.

Comment: Using featureCounts with SAF annotation file gives "Error: only GTF files contai by atan • 0

I tried reading in the .csv version of the SAF with header = F and I'm still getting an error. I'm running: ``` counts <- featureCounts( …

Votes

Answer: Not able to install any Bioconductor 3.18 package [unable to access index]

Answer: Documenting resources in an `ExperimentHub` package?

Answer: Not able to install any Bioconductor 3.18 package [unable to access index]

Seurat/DESeq2 - single cell RNA-seq differential expression

Seurat to SingleCellExperiment Converting error in MAC

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