Department of Computer Science

Nathan T. Weeks


  • email: (replace LAST_NAME with my surname)
  • LinkedIn
  • GitHub


PhD. student, Computer Science, Iowa State University (expected graduation 2018)

M.S. Computer Science, Iowa State University 2012

B.S. Mathematics, South Dakota State University 2003
B.S. Computer Science, South Dakota State University 2002

Research Interests

Parallel and High Performance Computing, Bioinformatics



  • ipcmd - A command-line interface to SysV semaphores and message queues
  • mpififo - Inter-node named pipes over MPI (poster)


2016 2015 2014 2013 2012 2011 2010

Technical Reports

Daniel Steinwand, Brian Davis, Nathan Weeks, "GeoWall: Investigations into Low-cost Stereo Display Systems", 2002 USGS Open File Report.", 2002 USGS Open File Report

Teaching Experience

Spring 2015, Math 525 - High Performance Computing (Teaching Assistant)

Fall 2014, Math 424X - Introduction to High Performance Computing (Teaching Assistant)

Spring 2014, Math 424X - Introduction to High Performance Computing (Teaching Assistant)

Spring 2003, Math 102 - College Algebra (at South Dakota State University)

News Articles

"Researchers use Edison to Improve Performance, Energy Efficiency of Bioinformatics Application." NERSC Science News. 13 Sep 2016.

"Lab harvests kernels of information." Iowa Farmer Today. 4 Feb 2009.

"Iowa State Crop Genomics Lab Largest in Nation." Iowa State University. 30 Oct 2008.

Other Work

2015 2014 2013 2012 2011 2010 2009
  • Bio::DB::SeqFeature::Store::DBI::SQLite - Perl module for the storage and retrieval of sequence annotation data using an SQLite database. I created this from the existing MySQL version, then contributed it to the bioperl project.
  • mpipipe - MPI-based parallelized Unix pipe for serial filter programs (final project for Com S 525 "Numerical Analysis of High Performance Computing") [presentation, manual page].
  • EST_GENOME_GPU - GPU program (based on EST_GENOME) for spliced alignment of transcript sequences to genomic DNA. A "finished" CUDA version and preliminary OpenCL port were done. Final project for Com S 590 "Research and Development in GPU Computing with CUDA". [presentation].