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. 2019 Nov 7:8:1874.
doi: 10.12688/f1000research.21142.2. eCollection 2019.

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

Guilherme de Sena Brandine  1 , Andrew D Smith  1
Affiliations

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

Guilherme de Sena Brandine et al. F1000Res. .

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.

Keywords: FastQC; high-throughput sequencing; quality control.

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Conflict of interest statement

No competing interests were disclosed.

Figures

Figure 1.
Figure 1.. Sample HTML report for test 8 (accession SRR891268).
Layout and plots are based on FastQC’s HTML report.
See this image and copyright information in PMC

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