Bioconductor Tophat

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votes

963

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snpeff python tophat r RNAseq123

updated 3.3 years ago by Kevin Blighe ★ 4.0k • written 3.3 years ago by kusum • 0

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1.0k

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noiseq rsubread tophat bowtie bowtie2

5.4 years ago Marcelo Laia ▴ 450

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1.1k

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topGO tophat kolmogorov-smirnov test

updated 7.3 years ago by James W. MacDonald 67k • written 7.3 years ago by aaronrosenstein • 0

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replies

2.3k

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R rnaseq tophat summarizeoverlaps systempiper

updated 8.0 years ago by Thomas Girke ★ 1.7k • written 8.0 years ago by abass.conteh • 0

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replies

8.0k

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deseq deseq2 edger tophat bowtie

9.4 years ago ysdel ▴ 40

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2.6k

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rnaseq summarizeOverlaps deseq2 tophat genomicalignments

updated 10.0 years ago by Dan Tenenbaum ★ 8.2k • written 10.0 years ago by alejandro.colaneri ▴ 20

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Comment: Problem at champ.load by icecreamlover • 0

Hello! Were you able to figure this out? I am running into the same error!

Comment: ChAMP - obtaining beta values using EPICv2 annotation by icecreamlover • 0

Hello, Were you able to fix the error? I used the same document and I am running into the same error. I am curious if you have any feedba…

Comment: BiomaRt Possible Ensembl SSL connectivity problems detected. by Adam • 0

Can this please be revisited and corrected ASAP? I'm encountering the same issue, using a slightly more modern version of R (4.1.0). It s…

Comment: Combining RNAseq and microarray data using edgeR/limma-voom by Adam Marstrand • 0

Thank you!

Comment: Combining RNAseq and microarray data using edgeR/limma-voom by Adam Marstrand • 0

Hi Gordon, Thanks for the answer! This makes a lot of sense. Your suggested pipeline (separate processing of datasets -> gene set analyses…

Votes

A: Down/Up-regulated genes asymmetry in edgeR differential expression analysis

Answer: Combining RNAseq and microarray data using edgeR/limma-voom

Answer: How do I merge a list of GRanges?

A: p.adjust BH generates duplicate values

Answer: Adjusted p-values become NA when sub-setting samples

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Popular Question to Guido Hooiveld ★ 4.1k