@@ -23,8 +23,7 @@ library(BiocStyle)

 `r Rpackage("pipeComp")` is a simple framework to facilitate the comparison of pipelines involving various steps and parameters. It was initially developed to benchmark single-cell RNA sequencing (scRNAseq) pipelines:

 _pipeComp, a general framework for the evaluation of computational pipelines, reveals performant single-cell RNA-seq preprocessing tools_<br/>

-Pierre-Luc Germain, Anthony Sonrel & Mark D Robinson, 

-bioRxiv [2020.02.02.930578](https://doi.org/10.1101/2020.02.02.930578)

+Pierre-Luc Germain, Anthony Sonrel & Mark D Robinson, _Genome Biology_ 2020, doi: [10.1186/s13059-020-02136-7](https://doi.org/10.1186/s13059-020-02136-7).

 However the framework can be applied to any other context. This vignette introduces the package and framework; for information specifically about the scRNAseq pipeline and evaluation metrics, see the [pipeComp_scRNA](pipeComp_scRNA.html) vignette. For a completely different example, with walkthrough the creating of a new `PipelineDefinition`, see the [pipeComp_dea](pipeComp_dea.html) vignette.