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Cory McLean's Projects

bcbb icon bcbb

Incubator for useful bioinformatics code, primarily in Python and R

cloud-bigtable-examples icon cloud-bigtable-examples

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

codelabs icon codelabs

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

dataflow-java icon dataflow-java

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

deepvariant icon deepvariant

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

genomewarp icon genomewarp

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

glnexus icon glnexus

Scalable gVCF merging and joint variant calling for population sequencing projects

gridmap icon gridmap

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

ibd icon ibd

Script for computing HaploScore

nucleus icon nucleus

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

protobuf icon protobuf

Protocol Buffers - Google's data interchange format

pysam icon 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.

pyvcf icon pyvcf

A Variant Call Format reader for Python.

utils-java icon utils-java

Common Java files for Google Genomics integrations.

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