FQC Dashboard: integrates FastQC results into a web-based, interactive, and extensible FASTQ quality control tool

By Joseph Brown, M. Pirrung, L. McCue. Bioinform., 2017

931 citations recorded by the source corpus.

Summary: FQC is software that facilitates quality control of FASTQ files by carrying out a QC protocol using FastQC, parsing results, and aggregating quality metrics into an interactive dashboard designed to richly summarize individual sequencing runs. The dashboard groups samples in dropdowns for navigation among the data sets, utilizes human‐readable configuration files to manipulate the pages and tabs, and is extensible with CSV data. Availability and implementation: FQC is implemented in Python 3 and Javascript, and is maintained under an MIT license. Documentation and source code is available at: https://github.com/pnnl/fqc. Contact: joseph.brown@pnnl.gov

Subfields: Artificial Intelligence, Information Systems, Molecular Biology

View Paper: https://www.semanticscholar.org/paper/eacf7e5551a8cea85278c2a746714f20258664ea

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Citations in the corpus

• MetaWRAP—a flexible pipeline for genome-resolved metagenomic data analysis (2018, methodology): “7 Other requirements: Conda; other packages automatically installed with metaWRAP: CONCOCT [19], MaxBin2 [20], metaBAT [21], CheckM [24], Binning_refiner [28], Kraken [29], Taxator-tk [30], BWA [32], SPAdes [34, 36], MegaHIT [35], KronaTools [37], Blobology [39], MegaBLAST [45], TrimGalore [46], BMT”
• Ultrafast one‐pass FASTQ data preprocessing, quality control, and deduplication using fastp (2023, methodology): “Many tools, such as FQC Dashboard [5] and NGS QC Toolkit [6], were developed for FASTQ data quality control.”
• Falco: high-speed FastQC emulation for quality control of sequencing data (2019, neutral): “Its analysis reports have become the standard for several QC tools, and automated analysis pipelines often rely on its evaluation as a safety criteria to proceed with downstream steps or, alternatively, to filter, trim or ultimately discard the data 11,12 .”