Repositories list

• phoenix

  Public
  🔥🐦🔥PHoeNIx: a platform agnostic pipeline for healthcare-associated and antimicrobial resistant pathogens

  Python

  •

  Apache License 2.0

  •19•61•10•1•Updated Jan 5, 2025Jan 5, 2025

• eMKF

  Public
  SAS

  •

  Apache License 2.0

  •2•2•0•0•Updated Jan 4, 2025Jan 4, 2025

• Opioid_SUD_MHI_MedCodes

  Public
  Code to flag ICD-10-CM codes related to opioid involvement, substance use disorder, and mental health issues in structured hospital data

  Python

  •3•6•0•0•Updated Jan 4, 2025Jan 4, 2025

• pyrenew-hew

  Public
  Models and infrastructure for forecasting COVID-19 and Flu hospitalizations using wastewater data with PyRenew

  Python

  •

  Apache License 2.0

  •1•5•46•4•Updated Jan 4, 2025Jan 4, 2025

• forecasttools

  Public
  R tools for short-term forecasting

  R

  •

  Apache License 2.0

  •2•3•7•0•Updated Jan 4, 2025Jan 4, 2025

• ixa

  Public
  Rust

  •

  Apache License 2.0

  •1•13•15•3•Updated Jan 4, 2025Jan 4, 2025

• prime-reportstream

  Public
  ReportStream is a public intermediary tool for delivery of data between different parts of the healthcare ecosystem.

  fhirpublic-healthcivic-tech+ 1hl7

  Kotlin

  •

  Creative Commons Zero v1.0 Universal

  •41•74•1.2k•130•Updated Jan 4, 2025Jan 4, 2025

• dibbs-query-connector

  Public
  A FHIR client allowing public health agencies to query health care organizations directly or via a TEFCA QHIN

  TypeScript

  •

  Creative Commons Zero v1.0 Universal

  •1•4•39•5•Updated Jan 4, 2025Jan 4, 2025

• data-exchange-processing-status

  Public
  The Public Health Data Observability (PHDO) Processing Status API (PS API) was developed to provide visibility into the status and performance of file uploads. The PS API provides the ability to receive reports about the status of uploads, and to develop custom queries to ask detailed questions about the data being uploaded and processed.

  Kotlin

  •

  Apache License 2.0

  •1•2•1•2•Updated Jan 4, 2025Jan 4, 2025

• trusted-intermediary

  Public
  Bringing together healthcare providers by reducing the connection burden.

  Groovy

  •

  Apache License 2.0

  •6•11•154•3•Updated Jan 4, 2025Jan 4, 2025

• tostadas

  Public
  🧬 💻 TOSTADAS → Toolkit for Open Sequence Triage, Annotation and DAtabase Submission

  pythondockermetadata+ 17bioinformaticsrna-seqpipelinenextflowgeneticsazuresequencing+ 10

  Python

  •

  Apache License 2.0

  •9•27•18•0•Updated Jan 3, 2025Jan 3, 2025

• DynODE

  Public
  CDC/CFA/Predict/Scenarios ODE Modeling Framework

  Python

  •

  Apache License 2.0

  •1•5•31•2•Updated Jan 3, 2025Jan 3, 2025

• phdi

  Public
  fhir

  HTML

  •

  Creative Commons Zero v1.0 Universal

  •15•35•226•10•Updated Jan 3, 2025Jan 3, 2025

• devsecops--import-projects

  Public
  Importing GitHub Actions into existing projects

  Shell

  •

  Apache License 2.0

  •1•0•0•0•Updated Jan 3, 2025Jan 3, 2025

• NEDSS-DataIngestion

  Public
  Data Ingestion for Modernization of NEDSS Project by Enquizit

  Java

  •

  Apache License 2.0

  •3•6•0•1•Updated Jan 3, 2025Jan 3, 2025

• cfa_azure

  Public
  pythonazureazure-batch+ 2azure-container-registryazure-blob-storage

  Python

  •

  Apache License 2.0

  •3•9•3•2•Updated Jan 3, 2025Jan 3, 2025

• reportstream-sftp-ingestion

  Public
  Go

  •

  Apache License 2.0

  •1•5•0•0•Updated Jan 3, 2025Jan 3, 2025

• cfa-ngm-widget

  Public
  Python

  •

  Apache License 2.0

  •1•0•11•3•Updated Jan 3, 2025Jan 3, 2025

• cfa-rt-postprocessing

  Public
  Python

  •

  Apache License 2.0

  •1•1•8•2•Updated Jan 3, 2025Jan 3, 2025

• dibbs-site

  Public
  JavaScript

  •2•1•0•9•Updated Jan 3, 2025Jan 3, 2025

• RecordLinker

  Public
  The RecordLinker is a service that links records from two datasets based on a set of common attributes. The service is designed to be used in a variety of public health contexts, such as linking patient records from different sources or linking records from different public health surveillance systems.

  pythonsqlalchemyfastapi

  Python

  •

  Apache License 2.0

  •1•3•19•2•Updated Jan 3, 2025Jan 3, 2025

• prime-simplereport

  Public
  SimpleReport is a fast, free, and easy way for COVID-19 testing facilities to report results to public health departments.

  reactjsterraformgraphql+ 1spring-boot

  Java

  •

  Creative Commons Zero v1.0 Universal

  •54•58•378•14•Updated Jan 3, 2025Jan 3, 2025

• clean-genes

  Public
  A rust crate that automatically cleans up a gene alignment by trimming to ORF and identifying and/or removing problematic sequences.

  data-sciencebioinformaticsfasta+ 9data-normalizationdata-cleaningsequence-alignmentsequence-analysissequence-annotationncirdncird-id+ 2

  Rust

  •

  Apache License 2.0

  •1•1•5•0•Updated Jan 3, 2025Jan 3, 2025

• cdc-open-viz

  Public
  CDC OpenViz is a library of React packages for data visualization.

  reactvisualizationdata+ 1visualization-library

  TypeScript

  •

  Apache License 2.0

  •21•36•0•5•Updated Jan 3, 2025Jan 3, 2025

• NEDSS-Modernization

  Public
  Java

  •3•18•0•4•Updated Jan 3, 2025Jan 3, 2025

• ReportVision

  Public
  Intelligent Data Workflow Automation

  TypeScript

  •

  Apache License 2.0

  •3•1•38•2•Updated Jan 3, 2025Jan 3, 2025

• covid19-forecast-hub

  Public
  A repository run by the US CDC to collect forecasts of weekly incident COVID-19 hospital admissions.

  R

  •

  Apache License 2.0

  •11•9•11•3•Updated Jan 3, 2025Jan 3, 2025

• NEDSS-Helm

  Public
  This repository is created for NEDSS Helm charts.

  Smarty

  •

  Apache License 2.0

  •2•2•0•5•Updated Jan 3, 2025Jan 3, 2025

• aquascope

  Public
  Nextflow

  •

  MIT License

  •11•17•7•0•Updated Jan 3, 2025Jan 3, 2025

• dibbs-vm

  Public
  HCL

  •

  Creative Commons Zero v1.0 Universal

  •1•0•12•1•Updated Jan 3, 2025Jan 3, 2025