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annotationhive

AnnotationHive: A Cloud-based Annotation Engine

arvados-pilot

autocopy

Autocopy handled transfer of sequencing data to the cluster and now DNAnexus

bcl2fastq

benchmarking_v1.1

bigquery-genomics-qc

Genomics QC pipeline

cescg

CIRM related projects

codelabs

Codelabs demonstrating usage of several tools and systems on genomic data.

coverage_stats

Post-processing of GATK DepthOfCoverage output to gather genelist-specific stats and other metrics.

covid19-wearables

crontab

datalab-examples

Example Cloud Datalab iPython Notebooks for genomics use cases.

defunct-env-modules

dockerfiles

Dockerfiles for building Docker images.

dockerflow

Dockerflow is a workflow runner that uses Dataflow to run a series of tasks in Docker with the Pipelines API

dockstore-tool-bamstats

A repo for the BAMStats command, used as the tutorial for Dockstore

dx-applets

DNAnexus applets used in the GSSC sequencing pipeline

encode_utils

Tools that are useful to any ENCODE submitting group.

env-modules

Environment modules

file_watcher

Recursively watches a specified directory for new files.

fluentd-forest-googlecloud

Dockerfile for building a Fluentd image with forest and google_cloud plugins.

gbsc_billing

This repository holds the scripts that allow the GBSC to bill its PIs for storage and compute usage on our cluster, cloud services, and bioinformatics consulting.

gbsc_dnanexus

gbsc_utils

DNXNexus Integration Code

gcp_utils

Scripts to manage access to the Google Cloud Platform

gene_coverage

Calculates gene-level breadth-of-coverage at several depth-of-coverage thresholds.

genomegenerator

A tool that generates genomics datasets for BigQuery

googledrive_bkup

Does a customized, recursive backup of the specified directory to Google Drive.

googva

healthkit-exporter

Exports HealthKit data to flat files.