Infectious Disease Sequencing Platform
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tfrcarvalho Fix bug: switching rows with columns (#1748)
Fix bug: correctly verify rounded edges has been set.
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app Fix bug: switching rows with columns (#1748) Nov 17, 2018
aws_batch move dockerfile to idseq-pipeline (#1308) May 18, 2018
bin Remove spring as it's slowing things down more than speeding things up ( Nov 8, 2018
config Assembly annotation (#1736) Nov 15, 2018
db Heatmap refactor (#1744) Nov 16, 2018
jest add jest and enzyme (#1199) Apr 18, 2018
lib scale-in (#1698) Nov 13, 2018
log initial import from `rails new` Aug 2, 2017
spec Update notification emails (#1672) Oct 22, 2018
test organize results folder (#1726) Nov 14, 2018
tmp initial import from `rails new` Aug 2, 2017
vendor initial import from `rails new` Aug 2, 2017
wiki-resources Adding some files as resources for the wiki (#1491) Sep 14, 2018
.babelrc IE 11 support. (#1678) Oct 23, 2018
.codeclimate.yml Refactoring IDseq controls (#1409) Aug 10, 2018
.dockerignore Use npm instead of yarn for everything (#1704) Nov 2, 2018
.eslintrc Add babel plugin to remove need for bind statements. (#1665) Oct 17, 2018
.gitignore remove remaining traces of yarn (#1712) Nov 6, 2018
.pylintrc a naive autoscaler (#640) Feb 12, 2018
.rspec Feature/enable cors (#64) Sep 19, 2017
.rubocop_todo.yml Update notification emails (#1672) Oct 22, 2018
.travis.yml Model scoring functions (#1407) Aug 7, 2018
DEV_GUIDELINES.md Update DEV_GUIDELINES.md (#1722) Nov 13, 2018
Dockerfile Use npm instead of yarn for everything (#1704) Nov 2, 2018
Gemfile Remove spring as it's slowing things down more than speeding things up ( Nov 8, 2018
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README.md Add idseq-bench to README (#1688) Oct 26, 2018
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SECURITY.md Create SECURITY.md Oct 4, 2018
balances.json Add tooltips to the phylo tree for both NCBI and Sample entries (#1532) Oct 1, 2018
config.ru add prometheus client (#137) Oct 5, 2017
czecs-resque.json Fix deploy by referencing czecs-resque.json (#1537) Oct 1, 2018
czecs-task-migrate.json Add tooltips to the phylo tree for both NCBI and Sample entries (#1532) Oct 1, 2018
czecs.json Deploy using czecs (#1524) Sep 29, 2018
docker-compose.yml organize results folder (#1726) Nov 14, 2018
enzyme_config.js add jest and enzyme (#1199) Apr 18, 2018
package-lock.json Heatmap refactor (#1744) Nov 16, 2018
package.json Heatmap refactor (#1744) Nov 16, 2018
pull_request_template.md pull_request_template.md (#328) Nov 16, 2017
webpack.config.common.js Markzhang/metadata sidebar (#1700) Nov 7, 2018
webpack.config.dev.js IE 11 support. (#1678) Oct 23, 2018
webpack.config.prod.js Fix entrypoints for js/css assets. (#1679) Oct 24, 2018

README.md

IDseq · GitHub license Build Status PRs Welcome

logo

Infectious Disease Sequencing Platform

IDseq is an unbiased global software platform that helps scientists identify pathogens in metagenomic sequencing data.

  • Discover - Identify the pathogen landscape
  • Detect - Monitor and review potential outbreaks
  • Decipher - Find potential infecting organisms in large datasets

A collaborative open project of Chan Zuckerberg Initiative and Chan Zuckerberg Biohub.

Check out our repositories:

Check out our user wiki for getting started as a user. Check out our dev wiki to get started as a developer.