AMPLICON Dataset From 9 SARS-CoV-2 Representative Sequences

This dataset comprises > 100 paired-end whole genome sequencing (WGS) data generated from nine representative SARS-CoV-2 sequences (IDs: LR991699,MW617687,MW763128,MW972888,OD913776,OM873778,OM898676,OU015160,OV754178) obtained from the COVID-19 data portal (https://www.covid19dataportal.org). The NGS datasets were created using InSilicoSeq (v. 2.0.1, https://github.com/HadrienG/InSilicoSeq) with ----sequence_type imposed to "amplicon". Abundance files, used with --abundance_file option, were created using the ARTIC amplicon v.4.1 map, to simulate an Artic Amplicon v.4.1 sequencing. For each representative sequence, we generated datasets with three different error models (HiSeq, NovaSeq, MiSeq) and read lengths (125, 150, 300 bps respectively) using the --model parameter (HiSeq, NovaSeq, MiSeq, see: https://insilicoseq.readthedocs.io/en/latest/iss/model.html). The datasets cover a range of sequencing depths, including 101x-1000x, 1001x-10000x, 10001x-100000x and greater than 100000x. Each FASTQ file name contains information on the representative sequence ID, the InSilicoSeq error model used, and the required coverage (i.e., ID.model.coverage.fastq.gz). Additional information for each sample can be found in the metadata file.
Publisher name: Joint Research Centre
Publisher URL: https://commission.europa.eu/about/departments-and-executive-agencies/joint-research-centre
Last updated: 2024-12-31T09:06:20Z