[BioC] Annotation different expressed exon. results from DESeq
alejandro.reyes at embl.de
Mon Mar 3 09:35:14 CET 2014
I think you meant DEXSeq.
To classify events into alternative splicing types it is useful to go
back to the alignment files and visualize the exon-exon junction reads,
then it becomes obvious which are the events that are giving rise to the
differences in exon usage.
> Dear list,
> When I use DESeq find different expressed exon in tow conditions. e.g,
> id baseMean baseMeanA baseMeanB
> 1 ENSMUSG00000079102:009 851.0096 1697.09604 4.9231156
> 2 ENSMUSG00000026727:016 239.6701 478.35562 0.9846231
> 3 ENSMUSG00000026727:004 155.8972 311.79442 0.0000000
> How can know the Alternative Splicing Event for
> ENSMUSG00000079102:009, ENSMUSG00000026727:016 and
> for example, Cassette exon (skipped exon), Intron retention, Mutually
> exclusive exons, Alternative 3' sites, Alternative 5' sites,
> Alternative first exon.
> Thank you very much in advance.
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