Creating image analysis tooling for x-ray laminography and micro-CT analysis.

Using NumPy, SciPy, scikit-learn, mutlithreading, multiprocessing, shared memory, and CuPy.

Focused on in-line semiconductor inspection and defect analysis.

As a member of the Bioinformatics team:

• Optimized deep CNN machine learning models for improved DNA sequencing.

• Generated, validated, and enhanced code for Phred quality models.

• Researched the impact of filtering on homopolymer distribution, Q-score, and throughput.

• NGS pipeline software development and configuration management for all steps.

• Studied accuracy as a function of coverage for karect based correction module.

• Implemented positive results of ad-hoc studies in Python software and algorithms.

• Improved alignment tools and demultiplexing code.

• Performed Verification and Validation testing and configuration management for software releases.

• Supported new team members, reviewed pull requests, and documented processes.

for the continuous improvement of the base-calling pipeline.

Worked with BWA, BLAST, SAMtools, FASTQ, Karect, Cutadapt, Trimmomatic.

Supported scientists genetically engineering microbes to create high value chemicals:

• Integrated diverse data sets that tracked short and long term fermentation experiments.

• Created back-end web services using NumPy, Pandas & Flask.

• Enhanced next generation sequencing infrastructure, incorporating new sequencing platform.

• Deployed services on Docker using Kubernetes on internal cloud.

Implemented new modules in Python, and created software for bioinformatics pipeline used to process raw data from the GENIUS gene sequencing system.

• Increased accuracy of 16s application using results from Hypervariable DNA regions.

• Evaluated and improved Phred Q-score (Quality) metrics.

• Added BWA as an option in the pipeline alignment module.

• Sped up modules by up to two orders of magnitude.

• Trained Q.A. team members and supported testing of software from Bioinformatics team.

Worked in Python, NumPy, SciPy, Pandas, Git, Docker, Google Cloud.