pipeComp

pipeComp pipeline benchmarking framework

Bioconductor version: 3.23 · Package version: 1.22.1

A simple framework to facilitate the comparison of pipelines involving various steps and parameters. The `pipelineDefinition` class represents pipelines as, minimally, a set of functions consecutively executed on the output of the previous one, and optionally accompanied by step-wise evaluation and aggregation functions. Given such an object, a set of alternative parameters/methods, and benchmark datasets, the `runPipeline` function then proceeds through all combinations arguments, avoiding recomputing the same step twice and compiling evaluations on the fly to avoid storing potentially large intermediate data.

if (!require("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("pipeComp")