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

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

Abstract We present pipeComp ( https://github.com/plger/pipeComp ), a flexible R framework for pipeline comparison handling interactions between analysis steps and relying on multi-level evaluation metrics. We apply it to the benchmark of single-cell RNA-sequencing analysis pipelines using simulated...

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Bibliographic Details
Main Authors: Pierre-Luc Germain, Anthony Sonrel, Mark D. Robinson
Format: Article
Language:English
Published: BMC 2020-09-01
Series:Genome Biology
Subjects:
Single-cell RNA sequencing (scRNAseq)
Pipeline
Clustering
Normalization
Filtering
Benchmark
Online Access:http://link.springer.com/article/10.1186/s13059-020-02136-7

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http://link.springer.com/article/10.1186/s13059-020-02136-7

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