DEN-IM's reports on shotgun and targeted metagenomics datasets

To evaluate the DEN-IM’s workflow performance, we analysed two datasets, one containing shotgun metagenomics sequencing data of patient samples, and a second with targeted metagenomics sequencing data obtained from PRJNA394021. The shotgun metagenomic dataset comprised of 22 shotgun metagenomics paired-end short-read Illumina sequencing samples datasets from clinical positive dengue cases (identified as such by a positive qRT-PCR/RT-PCR test and seroconversion test), one positive control (purified from a DENV culture), one negative control (blank), and an in vitro spiked sample containing the 4 DENV serotypes.<br>The analyses were executed with the default resources and parameters, with the option to include the closest typing reference in the final tree set to true on the shotgun metagenomics dataset. The resulting HTML reports for both analysis are available as compressed files.