StaPH-B

docker-builds

:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics

staphb_toolkit

Python Toolkit for using containerized programs in either Singularity or Docker

staph-b.github.io

Visit the site here: https://staphb.org

southeast-region

Scripts, pipelines, and training materials for the AMD Southeast Region

BI_Implementation_Guide

This document serves as a guide for State Public Health Laboratories considering hiring or working with bioinformaticians. It is currently under review with APHL and CDC.

resistanceDetectionCDC

titan

Public health bioinformatics repository for WDL workflows to analyze viral genomes.

CDPHE

Various pipelines and scripts used by the CO state public health lab

mycosnp

C. auris analysis workflow developed by the CDC translated for Nextflow

northeast-region

amd_academy_2020

Resource for AMD Academy

central-region

Site for AMD Central Region

midwest-region

Site for AMD Midwest Region

mountain-region

BRR and WFD resource pages for the Mountain Region.

plasmadazz

(In Development) - Plasmid searching and annotation tool for finished genome assemblies.