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Falco: high-speed FastQC emulation for quality control of sequencing data

Authors
  • de Sena Brandine, Guilherme1
  • Smith, Andrew D.1
  • 1 Department of Quantitative and Computational Biology, University of Southern California, Los Angeles, California, 90089, USA
Type
Published Article
Journal
F1000Research
Publisher
"F1000 Research, Ltd."
Publication Date
Jan 27, 2021
Volume
8
Identifiers
DOI: 10.12688/f1000research.21142.2
PMID: 33552473
PMCID: PMC7845152
Source
PubMed Central
Keywords
License
Unknown

Abstract

Quality control is an essential first step in sequencing data analysis, and software tools for quality control are deeply entrenched in standard pipelines at most sequencing centers. Although the associated computations are straightforward, in many settings the total computing effort required for quality control is appreciable and warrants optimization. We present Falco, an emulation of the popular FastQC tool that runs on average three times faster while generating equivalent results. Compared to FastQC, Falco also requires less memory to run and provides more flexible visualization of HTML reports.

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