Publications

2025

BrAPI v2: real-world applications for data integration and collaboration in the breeding and genetics community

Peter Selby, Rafael Abbeloos, Anne-Francoise Adam-Blondon, Francisco J Agosto-Pérez, Michael Alaux, …, Grzegorz Uszynski, Vivian Bass Vega, Stephan Weise, Shawn C Yarnes, The BrAPI Consortium

Database · 25 Sep 2025 · doi:10.1093/database/baaf048

Source

Coordinate: An Android application to organize samples into grids

Trevor W. Rife, Chaney Courtney, Prasad Kamath, Bryan Ellerbrock, Jesse A. Poland

Journal of Open Source Software · 04 Sep 2025 · doi:10.21105/joss.08263

Source

App

Affordable phenomics: Expanding access to enhancing genetic gain in plant breeding

V. Hoyos‐Villegas, M. Jackson, M. Vargas‐Cedeño, E. E. Farmer, M. Hanneman, …, M. McNair, S. Sankaran, S. Tirado Tolosa, M. A. Gore, T. W. Rife

The Plant Phenome Journal · 06 Aug 2025 · doi:10.1002/ppj2.70034

Sustaining public plant breeding programs across generations

Iago Hale, Jenny Koebernick, Jenna Hershberger, Trevor Rife, Juan‐David Arbelaez, …, Margaret Worthington, Margaret Smith, Gayle Volk, Marnin Wolfe, Michael Kantar

Crop Science · 11 Jun 2025 · doi:10.1002/csc2.70094

2024

Leaf Angle Estimation using Mask R-CNN and LETR Vision Transformer

Venkat Margapuri, Prapti Thapaliya, Trevor Rife

2024 Anaheim, California July 28-31, 2024 · 28 Jul 2024 · doi:10.13031/aim.202400960

Toward an open‐source 3D‐printable laboratory

Mason C. McNair, Sebastian C. Cocioba, Peter Pietrzyk, Trevor W. Rife

Applications in Plant Sciences · 18 Jan 2024 · doi:10.1002/aps3.11562

Data

3d-printing

2023

A Simplified Microscopy Technique to Rapidly Characterize Individual Fiber Traits in Cotton

Quinn LaFave, Shalini P. Etukuri, Chaney L. Courtney, Neha Kothari, Trevor W. Rife, Christopher A. Saski

Methods and Protocols · 03 Oct 2023 · doi:10.3390/mps6050092

deep-learning

2022

Breedbase: a digital ecosystem for modern plant breeding

Nicolas Morales, Alex C Ogbonna, Bryan J Ellerbrock, Guillaume J Bauchet, Titima Tantikanjana, …, Bert de Boeck, Hugo Campos, Rony Swennen, Jeremy D Edwards, Lukas A Mueller

G3 Genes|Genomes|Genetics · 06 Apr 2022 · doi:10.1093/g3journal/jkac078

Source

database

Intercross: An Android app for plant breeding and genetics cross management

Trevor W. Rife, Chaney Courtney, Guillaume Bauchet, Mitchell Neilsen, Jesse A. Poland

Crop Science · 08 Feb 2022 · doi:10.1002/csc2.20702

Source

App

phenoapps plant-breeding

Fractional Vegetation Cover Estimation using Hough Lines and Linear Iterative Clustering

Venkat Margapuri, Trevor Rife, Chaney Courtney, Brandon Schlautman, Kai Zhao, Mitchell Neilsen

arXiv · 01 Jan 2022 · doi:10.48550/arXiv.2205.00366

2021

Prospector: A mobile application for portable, high‐throughput near‐infrared spectroscopy phenotyping

Trevor W. Rife, Chaney Courtney, Jenna Hershberger, Michael Allen Gore, Mitchell Neilsen, Jesse Poland

The Plant Phenome Journal · 01 Jan 2021 · doi:10.1002/ppj2.20024

Source

App

phenoapps nir

2020

The Aegilops ventricosa 2NvS segment in bread wheat: cytology, genomics and breeding

Liangliang Gao, Dal-Hoe Koo, Philomin Juliana, Trevor Rife, Daljit Singh, …, Ravi Singh, Nils Stein, Martin Mascher, Allan Fritz, Jesse Poland

Theoretical and Applied Genetics · 12 Nov 2020 · doi:10.1007/s00122-020-03712-y

wheat

2019

A Field‐Based Analysis of Genetic Improvement for Grain Yield in Winter Wheat Cultivars Developed in the US Central Plains from 1992 to 2014

Trevor W. Rife, Robert A. Graybosch, Jesse A. Poland

Crop Science · 01 May 2019 · doi:10.2135/cropsci2018.01.0073

wheat plant-breeding

BrAPI—an application programming interface for plant breeding applications

Peter Selby, Rafael Abbeloos, Jan Erik Backlund, Martin Basterrechea Salido, Guillaume Bauchet, …, Gordon Stephen, Qi Sun, Clarysabel Tovar, Grzegorz Uszynski, Maikel Verouden

Bioinformatics · 23 Mar 2019 · doi:10.1093/bioinformatics/btz190

Source

api