Bioconductor Sashimi

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Coverage Gviz sashimi

10 weeks ago Marco • 0

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975

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gviz sashimi

updated 5.3 years ago by Robert Ivanek ▴ 750 • written 5.3 years ago by willbradshaw • 0

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1.4k

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Gviz Sashimi

5.6 years ago benjamin.carter • 0

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Gviz sashimi sashimi plots read counting bam

updated 7.8 years ago by Robert Ivanek ▴ 750 • written 7.8 years ago by bernt.popp • 0

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1.2k

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gviz intropolis junction sashimi

updated 8.3 years ago by florian.hahne@novartis.com ★ 1.6k • written 8.3 years ago by bernt.popp • 0

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Answer: Build error on kunpeng2 Linux aarch64 by James W. MacDonald 67k

This isn't the place for developer questions. Please use the developer listserv at bioc-devel@r-project.org instead. Also, you might wan…

Comment: biomaRt rnorvegicus_gene_ensembl not available anymore by James W. MacDonald 67k

You should use `useEnsembl` as the error recommends. ``` > library(biomaRt) > mart <- useEnsembl("ensembl", "rnorvegicus_gene_ensembl") > …

Comment: Deseq2 Design by James W. MacDonald 67k

The other thing I forgot to mention is that you need to specify a cell means model to `DESeq`. Here's an example. ``` > library(DESeq2) > …

Comment: biomaRt rnorvegicus_gene_ensembl not available anymore by Benjamin ▴ 20

I had access temporarily to the rat genome, but now it looks like ensemble 113 is completely down as I have this error: Error : Your q…

Comment: Deseq2 Design by pm_25 • 0

Thanks James for the prompt answer! your explanation makes more sense. in your example, when creating the interactions: ```r results(dds,…

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DiffBind giving different results from dba.report() and dba.analyze(..., bRetrieveAnalysis=TRUE)

Answer: Deseq2 Design

Answer: Fold change calculation in Diffbind vs. DESEQ2?

Fold change calculation in Diffbind vs. DESEQ2?

FeatureCounts Output Counts at Exon Level Using Default Settings, want gene level

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Scholar to James W. MacDonald 67k