John Calvin Morrison
215-429-9384 |  mutantturkey@gmail.com |  mutantturkey.com

CV 

Gregory Ditzler, Yemin Lan, John Calvin Morrison, Gail Rosen
"Fizzy: Feature Subset Selection for Metagenomics" 
Accepted 2015; BMI Bioinformatics 

S. D. Essinger, E. Reichenberger, C. Morrison, C. B. Blackwood, G. L. Rosen
"A Toolkit for ARB to Integrate Custom Databases and Externally built Phylogenies"
Jan 2015 PLOS One; DOI: 10.1371/journal.pone.0109277

G. Ditzler, J. Calvin Morrison, and G. Rosen.
"FizzyQIIME: Feature Selection for Metagenomics"
Genomic Science Annual Contractor-Grantee Meeting 2014

Yemin Lan, J. Calvin Morrison, Ruth Hershberg, and Gail L. Rosen.
"POGO-DB" - a database of pairwise-comparisons of genomes and conserved orthologous genes."
Nucleic Acids Research, 2013.  http://pogo.ece.drexel.edu

Reza MA, Mhatre SD, Morrison J. Calvin, Utreja S, Saunders AJ, Breen David E., Marenda Dan.
"Automated analysis of courtship suppression learning and memory in Drosophila melanogaster."
Fly 2013; 7:105 - 111; 

WORK EXPERIENCE

Software Engineer - Web Development @ Holt's Cigar Company ( January 2015 - Present )

- Help Develop www.holts.com, a Magento ecommerce site.

- Extensively worked with custom magento extensions

- Aided designers with web oriented design decisions and implementation

- Maintained and updated Drupal CMS sites

- Smoked many many cigars along the way



Scientific Programmer - Bioinformatics research tools @ Drexel. ( January 2013 - Fall 2014 )

- PyFeast, a feature selection toolkit wrapper in Python.

- Fizzy, metogenomic feature selection based using Python and PyFeast, and intregrated into QIIME,

- Pogo-DB, a fully fledged interactive web database written in PHP for querying gene similarity between species. 
  MySQL used as backend, PHP frontend.

- dna-utils, high-performance DNA parsing and primer strand counting written in C.

- SelectiveWholeGenomeAmplification, automated primer design based on brute
  force sweeps and paramter filtration of specific DNA primers for use in real
  world samples. The bulk of the tools are scripted together with Bash, and
  written in Python and C.

- Quikr, a taxonomic classifier using compressive sensing in C and OpenMP

- Web Queuing system for in-house classification software, written with the web2py Python web framework, for use with quikr.

- General systems administration for our computing nodes. Used LDAP for authentication, Storage using
  RAID. Used Debian, OpenSuse for development platforms and for the web, a LAMP stack as well as
  nginx for other applications



Computer Vision Programmer - Automated Fly Video Tracking and Analysis @ Drexel C.S. (May - Dec 2012)

- Developed high throughput tools in C, using ImageMagick, OpenCV and OpenMP for tracking fruit fly
  learning and memory tracking.

- Benchmarked tools and formalized software review, and improved performance to make product viable
  for scientists to use.

- Experience with color normalization, blob detection, and motion tracking using OpenCV

- Shell scripting for automated processing and modified tools for parallelization across a cluster.

- Currently in use at The Maranda Lab at Drexel.



Web Developer - The Math Images Project @ Goodwin College / Drexel CS (June 2011 - January 2013)

- Helped develop The Math Images Project wiki which engages students with interactive math webpages.

- Prototyped a replacement for Mediawiki using Drupal 7.

- Developed HTML5/Javascript applets and Java applets

- Developed faculty review system for use at Drexel CS department, written with PHP and MySQL


SKILLS

Platforms - GNU/Linux (Red Hat, Suse, Ubuntu, Arch), Mac OS X, Unix
Languages - C, Bash, PHP5, Javascript, HTML, Python, Matlab
Software - Linux System Administration, MySQL, Drupal, Mediawiki, Bugzilla, Nagios, LDAP, QIIME, BLAST2
Future Research Interests - Computer Vision, Bioinformatics, High Performance Computing, Real time video tracking.
	

Computer Vision

Tracking of Drosphila Flies for Automated Courtship Measurement

Bioinformatics

dna-utils - fast k-mer counting in C
quikr - Reconstructing bacterial communities using compressive matricies
POGO Online Database - 16s similarity might not always be the best
SelectiveWholeGenomeAmplication - primer design based on parameterized sweeps
Fizzy: Feature Selection for Genomics

Misc

Feature Selection for Python
Math Images