DEXSeq exon usage at sample level
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@xavier-pastor-7554
Last seen 5.0 years ago
Germany

Hi,

I'm interested in plotting the exon usage as it's done in the plotDEXSeq function but at sample level. Is it really possible? How could I do it?

Best,
Xavier

dexseq exon usage • 785 views
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Alejandro Reyes ★ 1.8k
@alejandro-reyes-5124
Last seen 5 days ago
Novartis Institutes for BioMedical Rese…

Hi Xavier,

The GLM fitting returns one value per condition (information from replicated samples are used for this estimation). Have you looked at the plotDEXSeq but plotting the gene counts normalized for sequencing depth?

Alejandro

 

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Hi Alejandro,

I am aware of the plotDEXSeq options, but still it doesn't offer what I'm interested in because looking at normalised counts may be misleading, since it may show more clearly the differential expression rather than the differential exon usage.

I know that DEXSeq does not offer a method to produce exon usage at sample level, so I would be interested in an approach that could provide me with these values if possible and if it makes sense.

Thanks and best,
Xavier

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