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idr-contrib

Cory McLean's repositories

codelabs

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

Language:PythonApache-2.01 20

PyVCF

A Variant Call Format reader for Python.

Language:PythonNOASSERTION1 20

bcbb

Incubator for useful bioinformatics code, primarily in Python and R

Language:Python020

cloud-bigtable-examples

Examples of how to use Cloud Bigtable both with GCE map/reduce as well as stand alone applications.

Language:JavaApache-2.0020

ibd

Script for computing HaploScore

Language:Python020

dataflow-java

Google Cloud Dataflow pipelines such as Identity-By-State as well as useful utility classes.

Language:JavaApache-2.0020

deepvariant

DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.

Language:PythonBSD-3-Clause020

genomewarp

GenomeWarp translates genetic variants from one genome assembly version to another.

Language:JavaApache-2.0020

GLnexus

Scalable gVCF merging and joint variant calling for population sequencing projects

Language:C++Apache-2.0010

gridmap

Easily map Python functions onto a cluster using a DRMAA-compatible grid engine like Sun Grid Engine (SGE).

Language:PythonGPL-3.0020

idr-metadata

Curated metadata for the Image Data Resource

Language:Python020

nucleus

Python and C++ code for reading and writing genomics data.

Language:PythonApache-2.0020

protobuf

Protocol Buffers - Google's data interchange format

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pysam

Pysam is a python module for reading and manipulating Samfiles. It's a lightweight wrapper of the samtools C-API. Pysam also includes an interface for tabix.

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python-docs-samples

Code samples used on cloud.google.com

Language:PythonApache-2.0020

readthedocs

Documentation for the Google Genomics cookbook.

Apache-2.0020

utils-java

Common Java files for Google Genomics integrations.

Language:JavaApache-2.0020