💾 📃 "Reads to report" for public health and clinical microbiology
Pathogen whole genome sequence (WGS) data analysis pipeline
This Docker image provides a ready-to-use environment for rMAP, a bioinformatics pipeline for analyzing microbial genomic data & profiling Resistome, Mobilome & Virulome. It includes all required tools & dependencies, enabling reproducible, scalable analysis of NGS data in research & public health settings, particularly for low-resource environment
Bacterial analysis toolbox for full ESKAPEE pathogen characterisation and profiling the resistome, mobilome, virulome & phylogenomics using WGS
A WDL-based workflow for profiling Klebsiella & E. coli genomes using Kleborate. Supports local execution with Cromwell both local & cloud deployment in Terra, enabling automated analysis of assemblies with docker & integration with Terra data tables for scalable genomic surveillance.
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