Pinned Repositories
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.
CDPHE
Various pipelines and scripts used by the CO state public health lab
docker-builds
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
mycosnp
C. auris analysis workflow developed by the CDC translated for Nextflow
northeast-region
resistanceDetectionCDC
southeast-region
Scripts, pipelines, and training materials for the AMD Southeast Region
staph-b.github.io
Visit the site here: https://staphb.org
staphb_toolkit
Python Toolkit for using containerized programs in either Singularity or Docker
titan
Public health bioinformatics repository for WDL workflows to analyze viral genomes.
StaPH-B's Repositories
StaPH-B/docker-builds
:package: :whale: Dockerfiles and documentation on tools for public health bioinformatics
StaPH-B/staphb_toolkit
Python Toolkit for using containerized programs in either Singularity or Docker
StaPH-B/staph-b.github.io
Visit the site here: https://staphb.org
StaPH-B/southeast-region
Scripts, pipelines, and training materials for the AMD Southeast Region
StaPH-B/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.
StaPH-B/resistanceDetectionCDC
StaPH-B/titan
Public health bioinformatics repository for WDL workflows to analyze viral genomes.
StaPH-B/CDPHE
Various pipelines and scripts used by the CO state public health lab
StaPH-B/mycosnp
C. auris analysis workflow developed by the CDC translated for Nextflow
StaPH-B/northeast-region
StaPH-B/amd_academy_2020
Resource for AMD Academy
StaPH-B/central-region
Site for AMD Central Region
StaPH-B/midwest-region
Site for AMD Midwest Region
StaPH-B/mountain-region
BRR and WFD resource pages for the Mountain Region.
StaPH-B/plasmadazz
(In Development) - Plasmid searching and annotation tool for finished genome assemblies.