https://rnajournal.cshlp.org/content/29/12/1839.long - APAeval - identification and quantification of alternative polyadenylation sites from bulk RNA-seq data

[SamBryce-Smith]

Bit of shameless self promotion on behalf of the team, but think it's a nice fit into the repo!

With APAeval we aimed to benchmark tools that perform identification and quantification of alternative polyadenylation sites from bulk RNA-seq data. Aside from the evaluation itself, it's also a framework for performing reproducible benchmarking of bioinformatics tools; we have Snakemake/nextflow pipelines to run each individual method on standardised inputs, and use standardised outputs to calculate metrics using a nextflow pipeline. This facilitates benchmarking for future developers and also provides users with straightforward, good-practice pipelines to execute the tools.

Repo - https://github.com/iRNA-COSI/APAeval
https://rnajournal.cshlp.org/content/29/12/1839.long
doi: 10.1261/rna.079849.123