Quality controls were performed with FastQC [1]. Possible contaminations
were assessed with FastqScreen [2]
Quality repord produced during
both trimming and mapping steps have been aggregated with MultiQC [3]. The
whole pipeline was powered by Snakemake [4].
| [1] | Andrews, S. Fastqc. "A quality control tool for high throughput sequence data. Augen, J.(2004). Bioinformatics in the post-genomic era: Genome, transcriptome, proteome, and information-based medicine." (2010). |
| [2] | Wingett, Steven W., and Simon Andrews. "FastQ Screen: A tool for multi-genome mapping and quality control." F1000Research 7 (2018). |
| [3] | Ewels, Philip, et al. "MultiQC: summarize analysis results for multiple tools and samples in a single report." Bioinformatics 32.19 (2016): 3047-3048. |
| [4] | Köster, Johannes, and Sven Rahmann. "Snakemake—a scalable bioinformatics workflow engine." Bioinformatics 28.19 (2012): 2520-2522. |
| Authors: | Thibault Dayris |
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| Version: | 2.2.7 of 04/24/2024 |
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