Published January 18, 2022
| Version v1
Dataset
Open
AMR Benchmarking dataset - Metagenomics
Description
Metagenomic benchmarking dataset for AMR detection pipelines for assemblies focusing on ESKAPE pathogens in addition to Salmonella. This dataset consists of closed genomes from NCBI where paired-end Illumina data was available. These genomes were then randomly assigned a relative abundance, had additional AMR genes randomly inserted (to cover all AMR genes in CARD v3.1.4) and metagenomic Illumina reads simulated from them.
Metagenomic simulation was performed using: https://github.com/fmaguire/AMR_Metagenome_Simulator and the entire process can be repeated using the metagenome_benchmark.sh script included above.
Files
amr_benchmarking_metagenome.csv
Files
(17.2 GB)
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