Keith Sheppard Email and Phone Number

* Designed, developed, and maintained FernTask; a mobile team-based daily task management app.* Implemented the data storage, server-side logic and authentication using Google’s Firebase cloud services.* Marketed and released FernTask with a subscription payment model for iOS and Android.

* Primary responsibilities included building software tools to integrate and analyze behavioral data for various mouse strains and collaborate with team members on the publication of our research.* Developed and trained a 12-point pose estimation CNN for experimental mouse models based on HRNet. Mouse Pose HRNet has been open sourced and released on github: https://github.com/KumarLabJax/deep-hrnet-mouse* Developed several gait analysis algorithms which aggregate, transform and summarize pose estimation data derived from our experimental videos. These algorithms are used to derive quantitative measures characterizing mouse gait that were previously not practical to generate at scale. Using this approach we discovered several statistically significant gait characteristics present in mouse strains modeling disease and published our results. We also released this gait analysis software to the research community as open source: https://github.com/KumarLabJax/gaitanalysis* Responsible for improving, automating and maintaining a complex video analysis pipeline which ran on our GPU and CPU clusters to perform a detailed frame-by-frame analysis on thousands of hours of phenotyping video data.

* Lead RockStep’s effort to develop IoT Solutions for monitoring key environmental measurements for animal housing units in real time, with the goal of improving operating costs and animal health. Public information on this project is available from the following Microsoft Case Study: https://microsoft.github.io/techcasestudies/iot/2016/12/10/Rockstep.html* Contributed as a software engineer on a team of four to iteratively improve RockStep Solutions primary software offering: CLIMB for animal lab informatics. RockStep followed an agile development methodology and typically released software updates every two weeks.

* Designed and developed the HaploQA application for analyzing and managing GigaMUGA and MegaMUGA genotype samples. HaploQA has an easy to use web application interface for uploading and managing samples, an HMM algorithm that automatically infers the haplotype structure of a sample after the user indicates a set of potential parental strains, and intuitive plots to view the inferred haplotype structure and enable early detection of likely labeling errors.* Developed the web application and database for the WORMHOLE ortholog search tool* Worked as a Software Engineer for Gary Churchill’s Lab for several years. During this time I contributed to many smaller projects including the MouseDivGeno R package.* Developed a java desktop application, “Glom”, using ImageJ’s APIs to perform rapid batch image segmentation and cropping of kidney slide scans for Susan Sheehan in the Korstanje lab.

* Cognitive Decision Aiding lead for the Survivability Planner Associate Rerouter (SPAR) research and development program* Designed various path planning and behavior planning algorithms that search and optimize over large datasets for unmanned systems* Led a team of five systems and software engineers on an internal research and development program for advanced Unmanned Aerial Vehicle (UAV) control technologies* Contributed to many other software development projects requiring the application of 3D modeling techniques and human machine interface (HMI) methods