Concepedia

Pipeline Benchmarking

Pipeline Benchmarking is a systematic evaluation framework used to assess and compare the performance, accuracy, and efficiency of bioinformatics pipelines in the context of metagenomic data quality control, distinguished by its focus on standardized metrics and reference datasets to enable reproducible and objective appraisal of computational methods.

44

Publications

2.6K

Citations

386

Authors

248

Institutions

Publications per year

2017–2026

32

Parents

Publications

44

A benchmark for RNA-seq quantification pipelines

Mingxiang Teng, Michael I. Love, Carrie Davis et al. · Genome biology · 2016 · 219 citations · Full text

, , +11

MOCAT: A Metagenomics Assembly and Gene Prediction Toolkit

Jens Roat Kultima, Shinichi Sunagawa, Junhua Li et al. · PLoS ONE · 2012 · 210 citations · Full text

, , +17

Widespread purifying selection on RNA structure in mammals

Martin A. Smith, Tanja Gesell, Peter F. Stadler et al. · Nucleic Acids Research · 2013 · 178 citations · Full text

, , +14

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

Pierre‐Luc Germain, Anthony Sonrel, Mark D. Robinson · Genome biology · 2020 · 154 citations · Full text

, , +17

MG-RAST version 4—lessons learned from a decade of low-budget ultra-high-throughput metagenome analysis

Folker Meyer, Saurabh Bagchi, Somali Chaterji et al. · Briefings in Bioinformatics · 2017 · 146 citations · Full text

, , +13

1–5 of 44

Authors

386

  1. CE
    Christopher E. Mason

    Cornell University, United States

    2 publications · 264 citations

    2

    h-index

  2. VK
    Verena Kufner

    University of Zurich, Switzerland

    2 publications · 121 citations

    2

    h-index

  3. DD
    Dries Decap

    Ghent University, Belgium

    2 publications · 50 citations

    2

    h-index

  4. SC
    Samuel Cordey

    University of Geneva, Switzerland

    2 publications · 121 citations

    2

    h-index

  5. ES
    Eve Syrkin Wurtele

    Iowa State University, United States

    2 publications · 30 citations

    2

    h-index

1–5 of 386

Institutions

248

  1. SIB Swiss Institute of Bioinformatics

    Lausanne, Switzerland

    5 h-index

    12 publications

    863 citations

  2. Centre National de la Recherche Scientifique

    Paris, France

    4 h-index

    14 publications

    1.2K citations

  3. The University of Melbourne

    Melbourne, Australia

    4 h-index

    16 publications

    840 citations

  4. University of Zurich

    Zurich, Switzerland

    4 h-index

    13 publications

    955 citations

  5. Inserm

    Paris, France

    3 h-index

    6 publications

    390 citations

  6. Walter and Eliza Hall Institute of Medical Research

    Melbourne, Australia

    3 h-index

    14 publications

    749 citations

  7. Stanford University

    Stanford, United States

    3 h-index

    22 publications

    2.2K citations

  8. Johns Hopkins University

    Baltimore, United States

    2 h-index

    3 publications

    256 citations

1–8 of 248

Venues

  1. PLoS ONE

    6 publications · 452 citations

    6

    h-index

  2. Bioinformatics

    5 publications · 158 citations

    5

    h-index

  3. Genome biology

    5 publications · 510 citations

    5

    h-index

  4. bioRxiv (Cold Spring Harbor Laboratory)

    Repository · 3 publications · 167 citations

    3

    h-index

  5. BMC Bioinformatics

    3 publications · 80 citations

    3

    h-index

1–5