Dataset for "Widespread microbial resistance occurs in the earliest stages of catchment urbanization in a tropical megacity"

Description This repository contains the data, processed outputs, figures, and analysis scripts supporting the manuscript "Widespread microbial resistance occurs in the earliest stages of catchment urbanization in a tropical megacity." The dataset includes the files required to reproduce the analyses and figures presented in the manuscript, as well as processed metagenomic data and associated resources. Raw sequencing reads are available through the NCBI Sequence Read Archive (SRA) under the BioProject accession reported in the manuscript, while this repository provides the processed datasets used for downstream analyses. Repository structure: 01_Figures/Contains all main manuscript figures in both PNG and editable SVG formats, the graphical abstract, and Table 1. 02_Supplementary_Data/Contains the complete supplementary tables associated with the manuscript. 03_MAGs/Contains the recovered metagenome assembled genomes (MAGs), genome coverage pipeline, sample metadata used for coverage estimation, and summary tables describing the recovered genomes. 04_Processed_Tables/Contains processed datasets generated throughout the analyses, including contig coverage tables, gene catalog abundance matrices, microbial community profiles, pathogen community analyses, biosynthetic gene cluster network data, and additional reference datasets used in the study. 05_Scripts/Contains the computational workflows and custom scripts used for data processing and statistical analyses, including bioinformatic pipelines and R scripts required to reproduce the main analyses. This repository is intended to ensure full transparency and reproducibility of the study by providing all processed data products, analysis scripts, and publication-ready figures associated with the manuscript. Raw sequencing data are deposited separately in the NCBI Sequence Read Archive (SRA).