frattalab / PAPA

PAPA (Pipeline-Alternative Polyadenylation) - Snakemake pipeline for analysis of APA from short-read RNA-seq data
GNU General Public License v3.0
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Replace SatuRn with DEXSeq #47

Closed SamBryce-Smith closed 1 year ago

SamBryce-Smith commented 1 year ago

DEXSeq more sensitive with low sample sizes, generally consistent ranking of events particularly at small p-values. Main advantage of SatuRn is scalability, but since most of our datasets are small sample sizes I think it's better to optimise for that.

Fully tested and runs on full datasets