PhD Theses

Daniel Cuevas. 2018. Bridging the Genomic Gaps: Genome-Scale Metabolic Network Tools for Bioinformatics Analyses. [read online]

Genivaldo Gueiros Zacarias Silva. 2016. Who Is There and What Are They Doing? An Agile and Computationally Efficient Framework for Genome Discovery and Annotation from Metagenomic Big Data. [read online]

Sajia Akhter. 2013. Finding a novel way for fast sequence alignment and exploiting information theory in bacterial genomes and complete phages. [read online]

Robert Schmieder. 2012. A framework for identifying antibiotic resistance in the human microbiome. [read online]

MSc Theses

Jon Beacher. 2018. Prokaryotic Taxonomy: A Software Analysis of Species Diversity. [read online]

Sabrina Parlan. 2018. Using k-mer abundance to identify crAssphage in fecal metagenomes.

Sylvia Yakoo. 2018. Comparative Analysis of Gene Annotation Tools

Kyle Levi. 2017. BAM scripts: tools for retrieving data from the Sequence Read Archive and analysis with read mapping. [read online]

Taylor O’Connell. 2017. Likelihood-Based Gap-Filling Of Genome-Scale Metabolic Models Using K-Mer Distance Evidence. [read online].

Jeff Sadural 2016. Underwater probes. [read online]

Han Suh Kang. 2016 Comprehensive analysis of curated prophage genomes from PhiSpy for assessment of phage genome mosaicism and tRNA dependencies. [read online]

Blaire Robinson. 2016. Genetic and Phenotypic Analysis of Gammaproteobacteria. [read online] [data]

Yujing Liang. 2014. Methods to Characterize Unknown Viral Genes Through Metabolomics [read online]

Steven Williams. 2013. The overlapping variation method algorithm. [read online]

Sheridan Wright. 2013. Burrows-Wheeler Aligner : a parallel approach. [read online]

Katelyn McNair. 2012. A Computational Method for Classifying Phages. [read online]

Jimmie Dixon. 2011. An interactive mitochondrial database.  [read online]