Bioconductor GSE

Showing : GSE • reset

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2.3k

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geoquery GSE

7.3 years ago mahm ▴ 20

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3.7k

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gene expression geoquery GSE bioconductor microarray

updated 7.3 years ago by Sean Davis 21k • written 7.3 years ago by mahm ▴ 20

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1.8k

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lumi microarray GSE

updated 7.8 years ago by Gordon Smyth 53k • written 7.8 years ago by mkd12 • 0

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1.9k

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microarray GSE

8.1 years ago Salvo88 ▴ 20

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1.9k

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GSE subsetting microarray

updated 8.1 years ago by Axel Klenk ★ 1.1k • written 8.1 years ago by A ▴ 60

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geoquery error message GEOquery GSE GEO

8.3 years ago Barah ▴ 20

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GSE soft files GEO data

10.2 years ago sz • 0

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1.6k

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geoquery GSE identical row.names

updated 11.1 years ago by Sean Davis 21k • written 11.1 years ago by PyPer ▴ 20

8 results • Page 1 of 1

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Answer: problem reading bam files into nucleR by James W. MacDonald 68k

The first step is to update to the current versions of R/Bioconductor and try again. It's possible that you have run into a bug that's alre…

Answer: Question about DESeq2 Design for Paired Treatment Study by ATpoint ★ 5.0k

It's a paired analysis so you don't need any patient-specific covariates such as age and sex. What you call batch effect might just be the …

Comment: problem reading bam files into nucleR by efoss ▴ 10

I thought I might be able to track down a problematic line in the bam file by repeatedly splitting the bam file in and then running the co…

Answer: two questions about limma by Gordon Smyth 53k

Answered here: https://support.bioconductor.org/p/16318/

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication? by Ahmed Salah • 0

Thank you very much! will take that into consideration

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Upcoming Ensembl API and data access changes - new blog post available

Comment: Highly similar RNA-seq samples in PCA - pooling or technical duplication?

Answer: Large logFC but somewhat high FDR

Comment: upstream git branches of bioc-release

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