P. Bodily

发表

Learning the Language of Genes: Representing Global Codon Bias with Deep Language Models

Mark J. Clement, M. Stanley Fujimoto, Paul M. Bodily, 2017 .

KAMI: Leveraging the power of crowd-sourcing to solve complex, real-world problems

P. Bodily, Kaden Marchetti, 2022, 2022 Intermountain Engineering, Technology and Computing (IETC).

Exome sequencing and unrelated findings in the context of complex disease research: ethical and clinical implications.

Ying Liu, Wei Wang, Mark Yandell, 2011, Discovery medicine.

Evaluation of Artificial Neural Network Performance for Classification of Potato Plants Infected with Potato Virus Y Using Spectral Data on Multiple Varieties and Genotypes

D. Delparte, L. Griffel, D. Hartley, 2022, Smart Agricultural Technology.

Musical Metacreation: Past, Present, and Future

D. Ventura, P. Bodily, 2018 .

HBPL: a Framework for Debating, Developing, and Reusing Foundational Models of Musical Metacreativity

D. Ventura, P. Bodily, 2017 .

Open Computational Creativity Problems in Computational Theory

Dan Ventura, P. Bodily, 2022, ICCC.

Implementation of an Anti-Plagiarism Constraint Model for Sequence Generation Systems

P. Bodily, Janita Aamir, 2022, ICCC.

GNUMAP 4.0: Space and Time Efficient NGS Read Mapping Using the FM-Index

Mark J. Clement, Quinn Snell, M. Stanley Fujimoto, 2018 .

Haplotype-centered mapping for improved alignments and genetic association studies

Perry G. Ridge, Mark J. Clement, Quinn Snell, 2014, BCB.

De novo Genome Assembly of the Fungal Plant Pathogen Pyrenophora semeniperda

J. Udall, S. Meyer, Paul Bodily, 2014, PloS one.

Low concordance of multiple variant-calling pipelines: practical implications for exome and genome sequencing

H. Hakonarson, W. Johnson, T. Jiang, 2013, Genome Medicine.

Deep Ancestral Introgression Shapes Evolutionary History of Dragonflies and Damselflies

Seth M. Bybee, Daniel R. Schrider, K. Crandall, 2020, bioRxiv.

Opsins have evolved under the permanent heterozygote model: insights from phylotranscriptomics of Odonata

Camilla R. Sharkey, Nicholas O. Jensen, Seth M. Bybee, 2017, Molecular ecology.

Parallel Pair-HMM SNP Detection

Mark J. Clement, Quinn Snell, Paul Bodily, 2012, 2012 IEEE 26th International Parallel and Distributed Processing Symposium Workshops & PhD Forum.

Modeling Global and local Codon Bias with Deep Language Models

Mark J. Clement, Quinn Snell, Cole A. Lyman, 2017, 2017 IEEE 17th International Conference on Bioinformatics and Bioengineering (BIBE).

Application of a MAX-CUT Heuristic to the Contig Orientation Problem in Genome Assembly

Mark J. Clement, Quinn Snell, Paul Bodily, 2013, BCB.

Inverted Sequence Identification in Diploid Genomic Scaffold Assembly via Weighted MAX-CUT Reduction

Paul Bodily, P. Bodily, 2013 .

Proximal-end bias from in-vitro reconstituted nucleosomes and the result on downstream data analysis

Steven M. Johnson, Andrew S. Earl, P. Bodily, 2021, PloS one.

Heterozygous genome assembly via binary classification of homologous sequence

Q. Snell, M. Clement, J. C. Price, 2015, BMC Bioinformatics.

Toward more accurate variant calling for “personal genomes”

W. Johnson, T. Jiang, Zhi Wei, 2013 .

Heterozygous genome assembly via binary classification of homologous sequence

Mark J. Clement, Quinn Snell, Paul Bodily, 2015, BMC Bioinformatics.

De novo identification of “ heterotigs ” towards accurate and in-phase assembly of complex plant genomes

James D. Jensen, M. Schatz, Q. Snell, 2012 .

What Happens When a Computer Joins the Group?

Paul Bodily, Dan Ventura, Dan Ventura, 2020, ICCC.

Design Team Perception of Development Team Composition: Implications for Conway's Law

Paul M. Bodily, Charles D. Knutson, Richard G. Morris, 2011, 2011 Second International Workshop on Replication in Empirical Software Engineering Research.

Progress on the development of a genome sequence for red raspberry Rubus idaeus

M. Schatz, P. Burns, M. Clement, 2012 .

Soup Over Bean of Pure Joy: Culinary Ruminations of an Artificial Chef

Dan Ventura, Paul Bodily, Richard G. Morris, 2012, ICCC.

A novel approach for multi-SNP GWAS and its application in Alzheimer’s disease

Perry G. Ridge, Mark J. Clement, Paul Bodily, 2016, BMC Bioinformatics.

Computational Humor: Automated Pun Generation

Paul Bodily, Bradley Tyler, Katherine Wilsdon, 2020, ICCC.

Text Transformation Via Constraints and Word Embedding

Dan Ventura, Paul Bodily, Benjamin Bay, 2017, ICCC.

Probabilistic Generation of Sequences Under Constraints

Paul M. Bodily, Brandon Biggs, Porter Glines, 2020, 2020 Intermountain Engineering, Technology and Computing (IETC).

ERwEM: Events Represented with Emotive Music Using Topic-Filtered Tweets

Paul Bodily, Makayla Harris, Hunter Harris, 2020, ICCC.

Tweet-Inspired Intelligent Subselection of Semantically-Related Lyrical Training Data

Paul Bodily, Dylan Lasher, P. Bodily, 2020, 2020 Intermountain Engineering, Technology and Computing (IETC).

Machine Learning for Inspired, Structured, Lyrical Music Composition

Paul Mark Bodily, P. Bodily, 2018 .

Genome Polymorphism Detection Through Relaxed de Bruijn Graph Construction

Mark J. Clement, Quinn Snell, Cole A. Lyman, 2017, 2017 IEEE 17th International Conference on Bioinformatics and Bioengineering (BIBE).

ScaffoldScaffolder: solving contig orientation via bidirected to directed graph reduction

Mark J. Clement, Quinn Snell, Dan Ventura, 2015, Bioinform..

Effects of error-correction of heterozygous next-generation sequencing data

Mark J. Clement, Quinn Snell, Paul Bodily, 2014, BMC Bioinformatics.

Visualizing the 3SAT to CLIQUE Reduction Process

P. Bodily, Kaden Marchetti, 2022, 2022 Intermountain Engineering, Technology and Computing (IETC).

Opsins have evolved under the permanent heterozygote model: insights from phylotranscriptomics of Odonata

Camilla R. Sharkey, Nicholas O. Jensen, Seth M. Bybee, 2017, Molecular ecology.