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Coverage Gviz sashimi

10 weeks ago Marco • 0

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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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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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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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Comment: Deseq2 Design by James W. MacDonald 67k

You could do that, but if we assume the within-group variability is similar across groups, you gain power by fitting a single model and ext…

Comment: Deseq2 Design by pm_25 • 0

Thanks James, I went ahead and fit the model for cell means as so: ```r dds <- DESeqDataSetFromTximport(txi, colData = sampleTable,~Condit…

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) > …

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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