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Fig. 1 | Genome Biology

Fig. 1

From: pipeComp, a general framework for the evaluation of computational pipelines, reveals performant single cell RNA-seq preprocessing tools

Fig. 1

Overview of the pipeComp framework and its application to a scRNAseq clustering pipeline. a The package is built around a PipelineDefinition class which defines a set of functions to be executed consecutively, as well as optional evaluation functions for each step. Each step can accept a number of parameters whose alternative values are provided as a list. All (or subsets of) combinations of parameters can then be simultaneously ran and evaluated using the runPipeline function (see Additional File 2 for more details). b Scheme representing the application of pipeComp to evaluate a range of methods that are commonly used in scRNAseq studies and some of the metrics monitored at various steps

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