Bioconductor HTseq

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DEXSeq HTSeq R

17 months ago • updated 16 months ago yr542 • 0

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DESeq2 microRNA HTSeq

2.1 years ago abhay.kanodia • 0

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1.0k

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DESeq2 RNA-seq HTseq DESeqDataSetFromHTSeqCount

updated 2.2 years ago by Michael Love 43k • written 2.2 years ago by abhay.kanodia • 0

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993

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DESeq2 htseq DEGseq RNASeq read

updated 2.2 years ago by Michael Love 43k • written 2.3 years ago by CP • 0

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1.3k

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software error HTSeq installation

updated 4.9 years ago by Martin Morgan 25k • written 4.9 years ago by eric33150 • 0

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4.9k

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voom htseq edgeR limma RNASeq123

updated 6.1 years ago by Gordon Smyth 52k • written 7.6 years ago by wd ▴ 30

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1.7k

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DEXSeq dexseq_count htseq

7.9 years ago mat.lesche ▴ 110

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HTSeq HTSeqCounts Could not find function DEXSeq

updated 8.8 years ago by Martin Morgan 25k • written 8.8 years ago by sakura.nussbaum ▴ 10

8 results • Page 1 of 1

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Answer: Selection of correct coefficients or contrasts in DESeq2 by swbarnes2 ★ 1.4k

I think you need to include the design you used, and the command you used to call it. The simplest answer is that your two ways of doing t…

Comment: Csaw normalization strategies - general inquiry by Luca • 0

Hello Aaron, About the IP efficiencies, yes definitely and for us, to complicate this experiment further, these batches were generated by …

Comment: How to compare expression levels of genes between scRNAseq and bulkRNAseq? by Quang NN ▴ 10

Thank you ATpoint for your response. In bulkRNAseq, I did have two cell types to compare. But, I want to also see if bulkRNAseq might have …

Answer: Why select top highly expressed genes based on normalized counts, but then plot by ATpoint ★ 4.6k

The choice of variable genes is typically part of a QC process. You select genes that in an unbiased fashion (unbiased because variance cal…

Comment: How to compare expression levels of genes between scRNAseq and bulkRNAseq? by ATpoint ★ 4.6k

My take is that RNA-seq (be it bulk or single-cell) is inherently relative. I don't think you can really "compare" the absolute expression …

Votes

Answer: Csaw normalization strategies - general inquiry

A: DESeq2 interaction term

Comment: Recount3 data correspond to TCGA data

Answer: DESeq2- merging technical vs biological replicates

Answer: SingleCellExperiment convenience function for metadata+expression?

Awards • All

Scholar to Aaron Lun ★ 28k