Repositories list

• id3c-customizations

  Public
  Extensions of ID3C for the Seattle Flu Study

  id3cscan-studyseattle-flu-study

  PLpgSQL

  •

  MIT License

  •0•3•3•2•Updated Oct 7, 2024Oct 7, 2024

• forecasts-ncov-states

  Public
  SARS-CoV-2 variant growth rates and frequency forecasts for US states

  Python

  •2•0•0•2•Updated Sep 30, 2024Sep 30, 2024

• assembly

  Public
  Pipelines for assembling NGS data from Seattle flu study.

  Python

  •10•8•0•0•Updated Jul 12, 2024Jul 12, 2024

• slack-exporter

  Public
  A Slack bot for exporting content from public and private channels.

  Python

  •

  GNU General Public License v3.0

  •36•0•0•0•Updated Apr 2, 2024Apr 2, 2024

• id3c

  Public
  Data logistics system enabling real-time pathogen surveillance. Built for the Seattle Flu Study.

  pythonclipostgres+ 13sqletlrest-apipostgresqlfhirplpgsqlsqitch+ 6

  PLpgSQL

  •

  MIT License

  •5•22•0•11•Updated Dec 6, 2023Dec 6, 2023

• switchboard

  Public archive
  A REDCap record switchboard for the SFS kit unboxing team.

  sqlitemakescan-study+ 1datasette

  Python

  •

  MIT License

  •0•2•0•2•Updated Nov 27, 2023Nov 27, 2023

• documentation

  Public
  Internal platform documentation

  wikiid3cseattle-flu-study+ 1scan-study

  Python

  •2•1•0•0•Updated Jul 21, 2023Jul 21, 2023

• incidence-mapper

  Public
  R interface to database, map model training, and model data API Server

  HTML

  •

  MIT License

  •1•5•46•2•Updated Dec 26, 2022Dec 26, 2022

• infra

  Public
  Work-in-progress Ansible setup for Seattle Flu Study infrastructure.

  Shell

  •0•0•0•3•Updated Nov 18, 2022Nov 18, 2022

• husky-musher

  Public
  A redirecting service for the Husky Coronavirus Testing study

  Python

  •2•2•0•1•Updated Sep 15, 2022Sep 15, 2022

• lab-result-reports

  Public archive
  Tools for generating lab test result reports as PDFs

  latexseattle-flu-studyscan-study+ 1docker

  TeX

  •

  MIT License

  •1•2•0•0•Updated Aug 10, 2022Aug 10, 2022

• geocoding

  Public
  Geocoding addresses into census tracts

  Python

  •0•0•0•0•Updated Aug 4, 2022Aug 4, 2022

• augur-build

  Public
  the (in development) augur build for understanding influenza dynamics in Seattle

  Python

  •26•0•3•0•Updated Jul 9, 2021Jul 9, 2021

• hct-autumn-2020

  Public
  University-wide COVID-19 Testing Program Methods and Autumn 2020 Results

  0•0•0•0•Updated Jan 28, 2021Jan 28, 2021

• heatmap

  Public
  Simple heatmap display of sample locations

  Python

  •0•0•0•0•Updated Oct 3, 2020Oct 3, 2020

• website-y3

  Public archive
  A simple, static website for SFS Year 3

  HTML

  •0•0•0•0•Updated Sep 23, 2020Sep 23, 2020

• Lab-Labels

  Public
  Quickly generate PDFs for printing cryo-safe labels

  TeX

  •

  Other

  •1•0•0•0•Updated Sep 2, 2020Sep 2, 2020

• genomic-incidence-tracker

  Public archive
  JavaScript

  •

  GNU Affero General Public License v3.0

  •0•1•7•3•Updated Aug 20, 2020Aug 20, 2020

• sqlite-utils

  Public
  Python CLI utility and library for manipulating SQLite databases

  Python

  •

  Apache License 2.0

  •111•0•0•0•Updated Jul 8, 2020Jul 8, 2020

• covid19-early-detection

  Public
  0•1•0•0•Updated May 27, 2020May 27, 2020

• lisless

  Public
  A LIS that does less, for the LIS-less.

  Python

  •1•1•0•0•Updated Feb 27, 2020Feb 27, 2020

• seattle-geojson

  Public
  A collection of Seattle maps based on different administrative divisions

  R

  •5•2•4•0•Updated Dec 7, 2019Dec 7, 2019

• simulated-data

  Public
  Simulated Seattle Flu Study data for developing visualization, analysis, and modeling tools.

  R

  •0•0•1•0•Updated May 13, 2019May 13, 2019

• seattle-flu-js-prototype

  Public
  This repo contains prototypes and visualization sketches for the Web-based Seattle Flu platform

  JavaScript

  •0•0•0•0•Updated Mar 17, 2019Mar 17, 2019