Bioconductor Sra

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1.2k

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SRA DESeq2

3.5 years ago Serge • 0

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1.1k

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RNA-seq SRA reverse reads forward reads

6.4 years ago modarzi ▴ 10

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R fastq SRA sradb

updated 8.0 years ago by Martin Morgan 25k • written 8.0 years ago by grecoandreauni • 0

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3.8k

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sra chipseqDB fastq-dump .lite.sra

updated 8.2 years ago by James W. MacDonald 67k • written 8.2 years ago by xhe764 • 0

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1.6k

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ncbi sra search

8.8 years ago massacomgrao • 0

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4.2k

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rnaseq biocparallel workflows sra Tutorial

9.4 years ago Sean Davis 21k

6 results • Page 1 of 1

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Comment: WGCNA with TPM tables by ATpoint ★ 4.5k

WGCNA is not a Bioconductor package, but generally: If you want to do serious analysis then find the raw data. There is no guarantee what …

Comment: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by Paul • 0

You are an absolute lifesaver, thank you so much for the clarification!

Answer: Issues with BSgenome.Mmusculus.UCSC.mm39 and generating motif matrix in Signac ( by James W. MacDonald 67k

The `EnsDb.Mmusculus.v79` package is mm38, not mm39. If you want a current `EnsDb`, use `AnnotationHub` ``` > library(AnnotationHub) >…

Comment: Identical samples after deseq2 batch effect removal by Michael Love 42k

I'm adding my comment to the threaded section ... I don't have any suggestions here but whatever method you're using is not appropriate up…

Comment: ANOVA like approach of edgeR by Yunshun Chen ▴ 880

If you do it this way, the dispersion estimates would be much higher than they should (as the cell type difference is not accounted for in …

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Comment: does anyone how to create rarefaction curves from a phyloseq object?

Answer: ANOVA like approach of edgeR

A: ANOVA-like test with edgeR

Answer: CleanUpRNAseq with a GTF that is missing mitochondria annotation data

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