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adam

A genomics processing engine and specialized file format built using Apache Avro, Apache Spark and Parquet. Apache 2 licensed.

ala-coding-class

avocado

A Variant Caller, Distributed

awa-scraper

battleship

Board games for my daughter

bayesdb

A Bayesian database for querying the probable implications of data as easily as SQL databases query the data itself

bdg-formats

Open source formats for scalable genomic processing systems using Avro. Apache 2 licensed.

bdg-services

Utility classes for wrapping services or other interfaces around a Spark/ADAM cluster. Apache 2 licensed.

bdg-utils

General (non-omics) code used across BDG products. Apache 2 licensed.

bigwig4j

A BigWig Reader, in Java

bioinfo-algorithms

Experimentation

bwa

Burrow-Wheeler Aligner

cavitynesting

"Cavity Nesting" Wildlife Database

cell-type

Code for working with the Cell Type (CL) Ontology

chrome-cli

Control Google Chrome from the command line

cnv

CNV calling functions and scripts

contest

Spark implementation of the ContEST contamination estimation algorithm.

dartmouth-atlas

Java utilities for data from the Dartmouth Atlas of Health Care.

data-use-ontology

A simple ontology for representing data use and research purpose constraints.

datacleaning

Simple scripts for data munging and cleaning.

datalog-experiment

Scala experiments with Datalog

datamining-36-350-homework

Source Code for Fall 2009 36-350 Homework

djeocoder

A standalone geocoder, derived from the OpenBlock use of GeoDjango.

docs

My writings.

dotfiles

Colourful & robust OS X configuration files and utilities.

dropwizard-configurable-assets-bundle

An implementation of an AssetBundle for use in Dropwizard that allows user configuration.

ffauto

Tools for managing my fantasy football draft and team.

ga4gh-flask-api

Flask implementation of part of the GA4GH WS API

graphite-experiment

Setting up Graphite inside of Vagrant.

gse-stereo-t

Mirror of SVN Repository for the STEREO-T project.