Find Samples on GitHub

Here’s a list of what you’ll find on GitHub.

Interactive Data Analysis Samples and Tools

getting-started-bigquery
Example queries to show how to get started with genomic data in BigQuery.
codelabs
Codelabs demonstrating usage of several tools and systems on genomic data.
bigquery-examples
Advanced BigQuery examples on genomic data.
datalab-examples
Example Google Cloud Datalab iPython Notebooks for genomics use cases.
bioconductor-workshop-r
R package containing instructional materials for using GoogleGenomics Bioconductor and bigrquery packages.
api-client-r
An R package for Google Genomics API queries.
gatk-tools-java
Tools for using Picard and GATK with the Google Genomics API.
beacon-go
AppEngine implementation of the Beacon API from the Global Alliance for Genomics and Health written in Go.

Cluster Computing Data Analysis Samples

dataflow-java
Google Cloud Dataflow pipelines such as Identity-By-State as well as useful utility classes.
spark-examples
Apache Spark jobs such as Principal Coordinate Analysis.
grid-computing-tools
Scripts and samples for using Grid Engine on Google Cloud Platform.

Working with the Google Genomics API

getting-started-with-the-api
Examples of how to get started with the Google Genomics API in many languages.
utils-java
Common Java files for Google Genomics integrations.

Data Visualization Application Samples

api-client-javascript
A simple web application that demonstrates how javascript can be used to fetch data from the Google Genomics APIs.
api-client-android
A sample Android app that calls the Google Genomics API.
api-client-python
Google AppEngine implementation of a simple genome browser that pulls data from the Google Genomics API.
api-client-r
An R package for Google Genomics API queries.

Data Analysis Application Samples

denovo-variant-caller-java
A de novo variant caller which uses information from a mother, father and child trio with a Bayesian inference method.
linkage-disequilibrium
A suite of Java tools to calculate linkage disequilibrium between variants and load the results into BigQuery and BigTable.

Miscellaneous

gce-images
Scripts that create Google Compute Engine images and Docker containers with popular genomics software installed.

Have feedback or corrections? All improvements to these docs are welcome! You can click on the “Edit on GitHub” link at the top right corner of this page or file an issue.

Need more help? Please see https://cloud.google.com/genomics/support.