Centers for Disease Control and Prevention
CDC's collaborative software projects to protect America from health, safety, and security threats, both foreign and in the U.S.
Georgia
Pinned Repositories
cdcgov.github.io
Portal site for all CDCgov projects, https://cdcgov.github.io
covid19healthbot
[Retiring Oct 7th, 2022] This project collects automated screening protocols and self-checker algorithms from organizations implementing CDC screening protocols in interactive web sites, chat bots, and other technology.
datasets-sars-cov-2
Benchmark datasets for WGS analysis of SARS-CoV-2. (https://peerj.com/articles/13821/)
MicrobeTrace
The Visualization Multitool for Molecular Epidemiology and Bioinformatics
mycosnp-nf
MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates
phoenix
🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens
prime-reportstream
ReportStream is a public intermediary tool for delivery of data between different parts of the healthcare ecosystem.
prime-simplereport
SimpleReport is a fast, free, and easy way for COVID-19 testing facilities to report results to public health departments.
SARS-CoV-2_Sequencing
A collection of sequencing protocols and bioinformatic resources for SARS-CoV-2 sequencing.
template
Template repository with rules, practices, and privacy, license, records notices to help people use the CDCgov GitHub organization.
Centers for Disease Control and Prevention's Repositories
CDCgov/phoenix
🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens
CDCgov/prime-reportstream
ReportStream is a public intermediary tool for delivery of data between different parts of the healthcare ecosystem.
CDCgov/prime-simplereport
SimpleReport is a fast, free, and easy way for COVID-19 testing facilities to report results to public health departments.
CDCgov/cdc-open-viz
CDC OpenViz is a library of React packages for data visualization.
CDCgov/ixa
CDCgov/PyRenew
Python package for multi-signal Bayesian renewal modeling with JAX and NumPyro.
CDCgov/dibbs-query-connector
A FHIR client allowing public health agencies to query health care organizations directly or via a TEFCA QHIN
CDCgov/pyrenew-hew
Models and infrastructure for forecasting COVID-19 and Flu hospitalizations using wastewater data with PyRenew
CDCgov/dibbs-ecr-viewer
DIBBS eCR Viewer
CDCgov/forecasttools-py
A Python package for common pre- and post-processing operations done by CFA Predict for short term forecasting, nowcasting, and scenario modeling.
CDCgov/MIRA-NF
CDCgov/Opioid_SUD_MHI_MedCodes
Code to flag ICD-10-CM codes related to opioid involvement, substance use disorder, and mental health issues in structured hospital data
CDCgov/phylophoenix
🔥🌿🐦🔥PhyloPHoeNIx: Pipeline for relatedness determination using PHoeNIx output.
CDCgov/NEDSS-DataIngestion
Data Ingestion for Modernization of NEDSS Project by Enquizit
CDCgov/dibbs-FHIR-Converter
Conversion utility to translate legacy data formats into FHIR
CDCgov/eMKF
CDCgov/stimulant_opioid_algorithm_medical_codes_R
CDCgov/cfa-immunization-uptake-projection
CDCgov/dibbs-ecr-refiner
The DIBBs eCR Refiner reduces eICR and RR files down to only the most useful, necessary information to alleviate performance and storage burden on eCR data pipelines and disease surveillance systems and bring focus to pertinent data for a given reportable condition.
CDCgov/hubverse-annotator
Locally-hosted web application for visualization of hubverse formatted observations and model forecasts and for annotation of data and models.
CDCgov/NEDSS-Infrastructure
CDCgov/rsv-forecast-hub
A repository run by the Centers for Disease Control and Prevention (CDC) to collect forecasts of weekly incident respiratory syncytial virus (RSV) hospitalizations.
CDCgov/sirfunctions
Key functions used by the SIR team
CDCgov/tidypolis
A package to simplify downloading, caching and updating POLIS data
CDCgov/cfa-cloudops
CDCgov/NEDSS-Helm
This repository is created for NEDSS Helm charts.
CDCgov/polarbayes
get tidy polars dataframes from arviz
CDCgov/cfa-tnd-ve-widget
Widget: Test-negative study design for estimating vaccine efficacy
CDCgov/ixa-epi-isolation
CDCgov/dibbs-text-to-code