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Matthew Vaughn

Login: mwvaughn

Company: Texas Advanced Computing Center

Location: Austin, TX

Bio: Director of Life Sciences @TACC / Leader of @Cyverse @jetstream-cloud @sd2e / HPC x Cloud evangelist / Robots+space+VR geek

Blog: https://profiles.impactstory.org/u/0000-0002-1384-4283

Member of

Repositories

3d_genome_browser: null
abaco: Actor Based Co(mputing)ntainers
abaco-cli: WIP implementation of a bash CLI for Abaco
aframe-boilerplate: A-Frame Starter Kit: Create your first "Hello World" WebVR scene
aframe-gamepad-controls: :video_game: Gamepad controls for A-Frame VR.
agave-admin-tools: Administrative tools for the TACC Agave API
agave-jsonpki: Escaping tool for keys and passwords
agave-kbase: Various in support of deploying Kbase apps in the iPlant Agave API
agavepy: A simple Python binding for the Agave API
ansible-role-docker: An Ansible Role that installs and configures Docker Engine on RedHat/CentOS or Debian/Ubuntu.
apps: Cloud init and heat templates for Jetstream Cloud base images
atted_webservices: Illustrative web service for ATTED II coexpression web service
autoapi: A basic spreadsheet to api engine
bam2counts-1.00: null
bashids: Pure Bash implementation of the hashid algorithm from http://hashids.org/
before-you-ship: requirements for shipping products
bimmer_connected: library to query the status of your BMW from the connected drive portal
bimmer_mon_ifttt: null
blast-2.2.26: Agave implementation of parallel BLAST
bwa-0.59: null
bwa-0.7.10: Reference bwa aln implementation for Agave API
cloud-to-butt: Chrome extension that replaces occurrences of 'the cloud' with 'my butt'
cloudway: Integration of cfncluster and iPlant Agave
collabopedia: null
coming-attractions: A multi-route static single page application for :cloud:.gov to alert your users in a quick and easy way during an incident response.
cookiecutter-django: Cookiecutter Django is a framework for jumpstarting production-ready Django projects quickly.
cshl-aframe-presentation: Official starter slides for giving talks and presentations about A-Frame.
cshl-biovis-install-oculus: Install and configuration instructions for all software assets used in "Immersive Approaches to Biological Data Visualization
cyverse-sdk: A resource for CyVerse developers
data_api_examples: Examples for the AIP Workshop API tutorial session
demo: null
demo2: null
demo3: null
designsafe-files-doc: null
docker2singularity: A docker image for converting docker images to singularity images.
dockerize: null
docker-provisioning-demo: Demo walking you through how to provision Docker hosts, register them with Agave, and use them as an elastic compute infrastructure to power your digital lab.
docker-requestbin: Requestbin
docker-runner-webapp-demo: This is a simple front-end webapp demostrating Agave's support for running Docker compute containers. http://agaveapi.github.io/docker-runner-webapp-demo/
docs.agaveapi.tacc.cloud: Docs repository for TACC's build of the Agave Science-as-a-Service API
DPED: Software and pre-trained models for automatic photo quality enhancement using Deep Convolutional Networks
ds-tutorial-aws-sns: For the deepstream / Amazon Web Services Simple Notification Service Tutorial
edgeR-iplant-de: Example of using the edgeR BioC library + R as an iPlant DE component
Einstein: NewtonOS running on other operating systems
elasticluster: Create clusters of VMs on the cloud and configure them with Ansible
enable_reactors: Upgrade any Ubuntu 14-16 Docker container image to be ready for TACC Reactors and Agave application runtimes
endofday: Execute pipelines and other workflows of docker containers.
expressologsByLocus: Queries the BAR expressologs service and transforms to an AIP locus_relationships type
fastlmm-plot: Create dynamic plots from FastLMM output
fastqc-application: null
Foundation_API_apps: Example applications for iPlant Foundation API
ga4gh-repo: Utility container packaging the ga4gh repo admin tools + samtools/bcftools/htslib 1.2
genotype-1.00: GATK-based animal genotyping pipeline implemented in iPlant API
gensel-4.55-de: null
gigafetch: Gigapan Downloader and Stitcher with export to Photoshop PSB or TIFF
goanna-connect: Adapter script to integrate AgBase GoAnna resource with iPlant DE
got-book-6: RNN trained on the first five GOT books
iAnimal: Various iAnimal-associated projects
idba_ud-1.1.2: Agave implementation of IDBA assembler
identity-idp: 18F Identity Provider (IdP)
iget_cached: Wrapper script for iRODS iget that provides local caching of files to enhance data locality
iipsrv-openjpeg-docker: A Dockfile deployment of IIP image server 1.0 with OPENJPEG 2.1
Imagenet-Tensorflow: Single Command Docker container to test imagenet classifier
immersenet: Immersive visualisation of genetic interactions.
interproscan-1.00: Clone of EBI interproscan command line client for iPlant DE
interproscan-agave: Repo for scalable InterproScan via Agave and the TACC Parametric Launcher
iplant-agave-sdk: null
iPlant-BWA-MEM-Parallel: A wrapper for increasing scaling of BWA.
iplant-de-charts: Examples of charts in DE leveraging Google APIs
iplant-de-genemania: Code and documentation for implementing GeneMania Query Runner and associated tools in the iPlant DE
iplant-de-verdant-rnaseq: shim scripts and exports of the JSON descriptions for RNAseq apps for the iPlant Verdant DE
iPlantFoundationAPIAdapter: null
jobs-run-this: Utility repo to over-ride jobs-run-this in agave-cli
kidl-compiler: Clone of Kbase Type Compiler http://kbase.science.energy.gov/dev-tools/20130412-kidl-compiler.tar.gz
laptop: A shell script which turns your Mac into an awesome web development machine.
macs: MACS app for iPlant Foundation API
maker_pylauncher: null
markov_bot: Initial proof-of-concept markov chain for statistically exploring documentation
metaphlan: Agave API implementation of metaphlan
nbgallery: nbgallery is an enterprise Jupyter notebook sharing and collaboration app
neural-animation: Implementing neural art on video
omero-webtest: An OMERO.web app for prototypes and examples
ostagram: null
periscope-framework: null
Plant-Ontology-API: Holds the Adama lookup web service wrapper for the Plant-Ontology-API
polymorph_hdr: More sophisticated ADAMA service to interact with the Weigel POLYMORPH HDR service
porecamp_usa_support: null
pretrained.ml: Compilation of pre-trained deep learning models with demos and code.
python-gitlab: Python wrapper for the GitLab API
queryThalemineAsJbrowseIndex: Example map_filter API for Araport ADAMA
renderest: Because it's better than a renderer!
rkt-ls5-dev: null
scaas-and-other-lies: This hands-on session will introduce you to the Agave API, and teach you how to use it to build applications and solve problems for science!
scripts: Early utility scripts for the Araport project
server: A reference implementation of the APIs defined in the schemas repository.
slackbridge: Bridging Slack.com #channels between companies
slack-export-viewer: A Slack Export archive viewer that allows you to easily view and share your Slack team's export
slackslime: Cross-team/organisation chat on Slack using the RTM API
slacktyping: i'm typing when you're typing
sphero_ros: A Sphero ROS driver.
springer-ase: Allele-specific expression pipeline developed in collaboration with Springer lab (UMN)
storyboarder: Storyboarder makes it easy to visualize a story as fast you can draw stick figures.
TACC-Lonestar-Compbio-Stack: null
tacc-proot: Streamlined environment for using proot
tacc-rpm-build-includes: Includes for TACC and other systems
tacc-sci-life: SPEC files used to build the packages maintained by TACC's Life Sciences Computing Group
TensorFlow-World: null
test12345: null
thalemineOntologyToLocus: Demonstration of using Thalemine templates as a basis for building a simple web service
Time2Code: Portable Scalable web code editor to integrate into your sites and learning experiences
tophat-1.3.1: Agave API implementation of tophat-1.3.1
tophat-wrapper: TopHat Wrapper for iPlant DE, originally authored by Sheldon McKay
TownGeneratorOS: The source code of the Medieval Fantasy City Generator
vr_cast: ~
vrdb: a prototype VR genome browser based on data from http://3dgb.cs.mcgill.ca/
vr-genome-mockups: some ways to show genome and track data in a-frame WebVR
workshop_tutorial_api: Tutorial for learning the basics of developing, testing, and deploying three types of AIP web services
Zappa: Serverless Python

Commits To

Repository	Most Recent Commit	# Commits
mwvaughn/ga4gh-repo	2016-10-22 14:17:14.0	2

This work is supported by the National Institutes of Health's National Center for Advancing Translational Sciences, Grant Number U24TR002306. This work is solely the responsibility of the creators and does not necessarily represent the official views of the National Institutes of Health.