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    409 repositories

    • prime-reportstream

      Public
      ReportStream is a public intermediary tool for delivery of data between different parts of the healthcare ecosystem.
      fhirpublic-healthcivic-techhl7
      Kotlin
      •
      Creative Commons Zero v1.0 Universal
      •40•72•1.3k•125•Updated Dec 1, 2024Dec 1, 2024

    • phoenix

      Public
      🔥🐦🔥PHoeNIx: A short-read pipeline for healthcare-associated and antimicrobial resistant pathogens
      Python
      •
      Apache License 2.0
      •18•59•9•2•Updated Dec 1, 2024Dec 1, 2024

    • eMKF

      Public
      SAS
      •
      Apache License 2.0
      •1•2•0•0•Updated Nov 30, 2024Nov 30, 2024

    • 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
      •2•6•0•0•Updated Nov 30, 2024Nov 30, 2024

    • ww-inference-model

      Public
      An in-development R package and a Bayesian hierarchical model jointly fitting multiple "local" wastewater data streams and "global" case count data to produce nowcasts and forecasts of both observations
      forecastingbayesian-inferencestanhierarchical-modelsreal-time-analyticscmdstanrwastewater-based-epidemiology
      R
      •
      Apache License 2.0
      •2•19•74•4•Updated Nov 30, 2024Nov 30, 2024

    • trusted-intermediary

      Public
      Bringing together healthcare providers by reducing the connection burden.
      Groovy
      •
      Apache License 2.0
      •5•11•162•7•Updated Nov 30, 2024Nov 30, 2024

    • covid19-forecast-hub

      Public
      A repository run by the US CDC to collect forecast data for the weekly new COVID-19 hospitalizations.
      R
      •
      Apache License 2.0
      •9•6•5•2•Updated Nov 30, 2024Nov 30, 2024

    • nis-py-api

      Public
      Python API to NIS data
      Python
      •
      Apache License 2.0
      •0•2•9•1•Updated Nov 30, 2024Nov 30, 2024

    • ixa

      Public
      Rust
      •
      Apache License 2.0
      •0•10•17•3•Updated Nov 30, 2024Nov 30, 2024

    • Rt-without-renewal

      Public
      Julia
      •
      Apache License 2.0
      •3•21•70•4•Updated Nov 30, 2024Nov 30, 2024

    • ixa-epi-isolation

      Public
      Rust
      •
      Apache License 2.0
      •0•0•0•5•Updated Nov 29, 2024Nov 29, 2024

    • cfa_azure

      Public
      Python
      •
      Apache License 2.0
      •2•9•4•0•Updated Nov 29, 2024Nov 29, 2024

    • wastewater-informed-covid-forecasting

      Public
      Wastewater-informed COVID-19 forecasting models submitted to the COVID-19 Forecast Hub
      R
      •
      Apache License 2.0
      •8•44•78•6•Updated Nov 29, 2024Nov 29, 2024

    • cfa-epinow2-pipeline

      Public
      R
      •
      Apache License 2.0
      •2•10•32•2•Updated Nov 29, 2024Nov 29, 2024

    • ReportVision

      Public
      Intelligent Data Workflow Automation
      TypeScript
      •
      Apache License 2.0
      •2•1•52•8•Updated Nov 29, 2024Nov 29, 2024

    • phdi

      Public
      fhir
      HTML
      •
      Creative Commons Zero v1.0 Universal
      •14•35•208•4•Updated Nov 29, 2024Nov 29, 2024

    • spyne

      Public
      Python
      •3•1•0•3•Updated Nov 29, 2024Nov 29, 2024

    • MIRA

      Public
      Python
      •1•14•0•5•Updated Nov 29, 2024Nov 29, 2024

    • SaviR

      Public
      The purpose of SaviR is to collect the functions needed to access and prepare various COVID data sources.
      R
      •
      Apache License 2.0
      •7•18•5•1•Updated Nov 29, 2024Nov 29, 2024

    • cfa-gam-rt

      Public
      R package for real-time Rt estimation with penalized splines
      R
      •
      Apache License 2.0
      •1•13•22•2•Updated Nov 29, 2024Nov 29, 2024

    • prime-simplereport

      Public
      SimpleReport is a fast, free, and easy way for COVID-19 testing facilities to report results to public health departments.
      reactjsterraformgraphqlspring-boot
      Java
      •
      Creative Commons Zero v1.0 Universal
      •53•58•369•17•Updated Nov 29, 2024Nov 29, 2024

    • ONT-Seq-analysis

      Public
      ONT-Seq-analysis is a specialized pipeline designed for analyzing Oxford Nanopore Technologies (ONT) sequencing data from Mpox isolates. It performs reference-based assemblies, identifies variants, designates clades, and generates a detailed quality control (QC) report.
      Nextflow
      •
      Apache License 2.0
      •1•0•0•0•Updated Nov 29, 2024Nov 29, 2024

    • cdc-open-viz

      Public
      CDC OpenViz is a library of React packages for data visualization.
      reactvisualizationdatavisualization-library
      TypeScript
      •
      Apache License 2.0
      •19•35•0•10•Updated Nov 29, 2024Nov 29, 2024

    • data-exchange-fhir

      Public
      Enterprise Data Exchange (DEX) is a new cloud-native centralized data ingestion, validation, and observation service scoped for common data types (HL7, FHIR, CDA, XML, CSV) sent to the CDC. It helps public health stakeholders who send data to the CDC while reducing the maintenance efforts, complexity, and duplication of ingestion points to CDC.
      C#
      •
      Apache License 2.0
      •2•10•157•5•Updated Nov 29, 2024Nov 29, 2024

    • reportstream-sftp-ingestion

      Public
      Go
      •
      Apache License 2.0
      •0•5•0•0•Updated Nov 28, 2024Nov 28, 2024

    • 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
      •0•4•36•5•Updated Nov 28, 2024Nov 28, 2024

    • pyrenew-hew

      Public
      Models and infrastructure for forecasting COVID-19 and Flu hospitalizations using wastewater data with PyRenew
      Python
      •
      Apache License 2.0
      •0•5•41•3•Updated Nov 28, 2024Nov 28, 2024

    • forecasttools-py

      Public
      A Python package for common pre- and post-processing operations done by CFA Predict for short term forecasting, nowcasting, and scenario modeling.
      infrastructureautomationabstractionforecastinginfectious-disease-modeling
      Python
      •
      Apache License 2.0
      •0•4•11•2•Updated Nov 27, 2024Nov 27, 2024

    • dibbs-site

      Public
      JavaScript
      •1•1•0•8•Updated Nov 27, 2024Nov 27, 2024

    • NEDSS-Helm

      Public
      This repository is created for NEDSS Helm charts.
      Smarty
      •
      Apache License 2.0
      •1•2•0•8•Updated Nov 27, 2024Nov 27, 2024