Output of https://github.com/naobservatory/mgs-workflow/tree/2.5.0., used for Deep wastewater metatranscriptomic sequencing data, Los Angeles, USA, 2023-2024

This repo contains results of a biocomputational analysis of wastewater sequencing data presented in the paper "Deep wastewater metatranscriptomic sequencing data, Los Angeles, USA, 2023-2024."Here is the abstract of the paper that presents the data:Here we present a dataset consisting of 13.1 terabases (43B read pairs) of untargeted Illumina W-MTS data, generated from 20 wastewater samples, with 1.4B to 2.8B 150bp read pairs per sample. Wastewater samples were collected between December 2023 and April 2024 at the Hyperion Water Reclamation Plant (HWRP), Los Angeles, serving a population of approximately 4 million residents. The resulting dataset, one of the largest W-MTS collections to date, contains bacterial, archaeal, eukaryotic, and viral taxa—including human-infecting viruses—and many sequences of unknown origin. Uploaded to the NCBI Sequence Read Archive, we expect this data to spur additional research into the composition and viability of wastewater sequencing data for wastewater-based epidemiology and early detection of novel pathogens.The original dataset can be found under: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA1198001The pipeline that was used to analyze the sequencing data can be found under: https://github.com/naobservatory/mgs-workflow/tree/2.5.1<br>