Publications

Selected publications by Dirk Colbry papers from 2022 to 2002   |   Last modified on 11 May 2022.


2022 | 2021 | 2020 | 2019 | 2018 | 2017 | 2016 | 2015 | 2014 | 2013 | 2012 | 2011 | 2010 | 2009 | 2008 | 2007 | 2006 | 2005 | 2004 | 2003 | 2002

2022

  • Han, Junjie, Siegford, J , Colbry, D , Lesiyon, Raymond, Norton, Tomas, Chen, Chen and Steibel, J, 10 deep learning for multi - behavioral video classification of interactive behaviors of pigs in single - spaced automatic feeders, Journal of Animal Science, 2022 [doi]
  • Han, Junjie, Siegford, Janice, Colbry, Dirk, Lesiyon, Raymond, Bosgraaf, Anna, Chen, Chen and Norton, Thomas, Evaluation of computer vision for detecting agonistic behavior of pigs in a single-space feeding stall through blocked cross-validation strategies ( submitted ), Computers and Electronics in Agriculture, 2022
  • Lin, Davin, Prabagaran, Padma and Colbry, Dirk, Validating new autocv workflows to traditional automl ( submitted ), 2022

2021

  • Dirk Colbry, The design of a practical flipped classroom model for teaching parallel programming to undergraduates, The Journal of Computational Science Education 12, 41-45, 2021 [html] [doi]
  • Murashova, Gabrielle A and Colbry, Dirk, Gm fasst : general method for labeling augmented sub -sampled images from a small data set for transfer learning, Machine Learning with Applications, 100168, 2021 [html] [doi]
  • Neeman, Henry, Rivera, Lorna, DeStefano, Lizanne, Al-Azzawi, Hussein, Brunson, Dana, Clemins, Patrick, Colbry, Dirk, Frye, Calvin, Gesing, Sandra, Gyllinsky, Joshua, Klimaszewski-Patterson, Anna, Phataralaoha, Anchalee, Price, Todd, Tanash, Mohammed and Voss, Daniel, An evaluation of cyberinfrastructure facilitators skills training in the virtual residency program, Practice and experience in advanced research computing, 1-7, 2021 [html]
  • Colbry, Dirk, Matrix algebra with computational applications, 2021 [html]
  • Pinckard, Kai, Grabill, Nicholas and Colbry, Dirk, Scaling of evolutionary search of algorithm space to speed - up scientific image understanding workflows, 2021

2020

  • Colbry, Dirk, Murillo, Michael, Alessio, Adam and Christlieb, Andrew, Computational mathematics , science and engineering ( cmse ): establishing an academic department dedicated to scientific computation as a discipline, The Journal of Computational Science Education 11, 68-72, 2020 [html] [doi]
  • Briliyanti, Astri, Rojewski, Julie W , Colbry, Dirk Joel Luchini and Luchini-Colbry, Katy, Stemambassadors : developing communications , teamwork , and leadership skills for graduate students, Proceedings of the 2020 asee virtual annual conference, 2020 [doi]
  • Colbry, Dirk, The design of a practical flipped classroom model for teaching parallel programming to undergraduates". dirk colbry, Third workshop on strategies for enhancing hpc education and training ( sehet20 ), 2020
  • Colbry, Dirk, Training graduate students across disciplines : tools and techniques for developing scientific software, 2020
  • Neeman, Henry, Akin, David, Al-Azzawi, Hussein, Brandt, Kevin L , Brooks Kieffer, Jamene, Brunson, Dana, Colbry, Dirk, Gesing, Sandra, Klimaszewski-Patterson, Anna, Mizumoto, Claire, Pine-Thomas, Joy A , Schwartz, Anita Z , Severini, Horst, Tanash, Mohammed and Voss, Daniel, Cyberinfrastructure facilitation skills training via the virtual residency program, Practice and experience in advanced research computing, 421-428, 2020 [html] [doi]
  • Briliyanti, Astri, Wilson Rojewski, Julie, Luchini-Colbry, Katy and Colbry, Dirk, Cyberambassadors : results from pilot testing a new professional skills curriculum, Practice and experience in advanced research computing, 379-385, 2020 [html] [doi]

2019

  • Briliyanti, Astri, Rojewski, Julie, Nguyen, TJ Van, Colbry, Katy Luchini and Colbry, Dirk, The cyberambassador training program, 2019
  • Luchini-Colbry, Kathleen, McComb, Chrisopher, Colbry, Dirk, Rojewski, Julie and Briliyanti, Astri, Engineering futures : updating a successful professional development program to address new challenges, 2019 asee annual conference \& exposition, 2019
  • Luchini-Colbry, Kathleen, Colbry, Dirk, Rojewski, Julie and Briliyanti, Astri, Partners in professional development : initial results from a collaboration between universities , training programs , and professional societies, 2019 asee annual conference \& exposition, 2019
  • Neeman, Henry, Al-Azzawi, Hussein, Brunson, Dana, Burke, William, Colbry, Dirk, Falgout, Jeff T , Ferguson, James W , Gesing, Sandra, Gyllinsky, Joshua, Simmons, Christopher S , Simms, Jason L , Tanash, Mohammed, Voss, Daniel, Wells, Jason and Yockel, Scott, Cultivating the cyberinfrastructure workforce via an intermediate / advanced workshop in the virtual residency program, Proceedings of pearc18 practice and experience in advanced research computing, 2019
  • Tseng, Ethan, Yu, Felix, Yang, Yuting, Mannan, Fahim, Arnaud, Karl ST , Nowrouzezahrai, Derek, Lalonde, Jean-François and Heide, Felix, Hyperparameter optimization in black-box image processing using differentiable proxies, ACM Transactions on Graphics 38, 1-14, 2019 [html] [doi]

2018

  • Murashova, Gabrielle, Colbry, Dirk and Marcos, Dantus, Spectral unmixing of the native endogenous fluorophores of unstained tissues using multimodal nonlinear optical imaging and comparison of inverse problem solving methods, 2018
  • Neeman, Henry, Al-Azzawi, Hussein M , Bergstrom, Aaron, Braiterman, Zoe K , Brunson, Dana, Colbry, Dirk, Colmenares, Eduardo, Fuller, Akilah N , Gesing, Sandra, Kalyvaki, Maria, Mizumoto, Claire, Park, Jeho, Schwartz, Anita Z , Simms, Jason L and Vania, Rustomji, Progress update on the development and implementation of the advanced cyberinfrastructure research \& education facilitators virtual residency program, Proceedings of the practice and experience on advanced research computing, 71:1-71:7, 2018 [html] [doi]

2017

  • Balachandran, S , Radha, Z , Colbry, D and Crimp, M A, Focused ion beam ( fib ) based tomography of dislocations using electron channeling contrast imaging ( ecci ), Microscopy and Microanalysis 23, 572-573, 2017 [html] [doi]

2016

  • Danielak, Brian, O'Shea, Brian and Colbry, Dirk, Using principles from the learning sciences to design a data - driven introduction to computational modeling, Workshop on teaching computational science ( wtcs ), 2016
  • Colbry, D, Getexample: reducing barriers to entry on shared hpc resources, 2016 third international workshop on hpc user support tools ( hust ), 1-5, 2016 [doi]
  • Colbry, D, Getexample: reducing barriers to entry on shared hpc resources, 2016 third international workshop on hpc user support tools ( hust ), 1-5, 2016 [doi]

2015

  • Nault, Rance, Colbry, Dirk, Brandenberger, Christina, Harkema, Jack R and Zacharewski, Timothy R, Development of a computational high - throughput tool for the quantitative examination of dose - dependent histological features, Toxicologic Pathology 43, 366-375, 2015 [html] [doi]
  • Sagert, Irina, Howell, Jim, Staber, Alec, Strother, Terrance, Colbry, Dirk and Bauer, Wolfgang, Knudsen-number dependence of two-dimensional single-mode rayleigh - taylor fluid instabilities, Physical Review. E, Statistical, Nonlinear, and Soft Matter Physics 92, 013009, 2015 [doi]
  • Howell, Jim, Bauer, Wolfgang, Colbry, Dirk, Pickett, Rodney, Staber, Alec, Sagert, Irina and Strother, Terrance, Parallelization of kinetic theory simulations, Nuclear physics : present and future, 183-192, 2015 [html]

2014

  • Colbry, Dirk, Managing advanced computational resources to encourage best practices for developing repeatable scientific software, reproducibility XSEDE: An XSEDE14 Workshop, 2014 [html]
  • Colbry, Dirk and Colbry, Kathleen, Scaffolded structuring of undergraduate research projects, The annual conference of the american society for engineering education, 2014 [html]
  • Sagert, Irina, Bauer, Wolfgang, Colbry, Dirk, Howell, Jim, Pickett, Rodney, Staber, Alec and Strother, Terrance, Hydrodynamic shock wave studies within a kinetic monte carlo approach, Journal of Computational Physics 266, 191-213, 2014 [html] [doi]
  • Colbry, Dirk, Icer interns : engaging undergraduates in high performance computing, Proceedings of the 2014 annual conference on extreme science and engineering discovery environment, 71, 2014 [html]
  • Chen, Jinzhu, Tan, Rui, Wang, Yu, Xing, Guoliang, Wang, Xiaorui, Wang, Xiaodong, Punch, Bill and Colbry, Dirk, A sensor system for high - fidelity temperature distribution forecasting in data centers, ACM Transactions on Sensor Networks (TOSN) 11, 30, 2014 [html]

2013

  • Colbry, Dirk, Dyer, Fred, Dworkin, Ian, Wang, Yang and Wang, Lifeng, Speeding up scientific imaging workflows : design of automated image annotation tool, Workshop on user - center computer vision ( uccv ), 2013 [html]
  • Colbry, Dirk and Shrikhande, Neelima, Discrete and continuous curvature computation for real data, Is \& t spie electronic imaging, 90250L-90250L, 2013 [html]
  • Colbry, Dirk, Punch, William and Bauer, Wolfgang, The institute for cyber-enabled research: regional organization to promote computation in science, 2013 [doi]
  • Colbry, Dirk and Luchini-Colbry, Kathleen, Gadget avalanche : a technology literacy course for novice adults, 2013 asee annual conference \& exposition, 2013
  • Sagert, Irina, Bauer, Wolfgang, Colbry, Dirk, Pickett, Rodney and Strother, Terrance, Building a hydrodynamics code with kinetic theory, Journal of physics : conference series 458, 012031, 2013 [html]
  • Colbry, Dirk and Luchini-Colbry, Kathleen, Stem insight : developing a research skills course for first - and second - year students, Proceedings of the 2013 conference of the american society for engineering education, 2013

2012

  • Xin, Junjun, Bardel, Chuck, Colbry, Dirk, Udpa, Lalita and Udpa, Satish, Simultaneous iterative reconstruction techniques for computerized tomography on gpu, 2012
  • Colbry, Dirk and Luchini-Colbry, Katy, Cybergreen : hands - on engineering research in sustainability and supercomputing ”, 2012
  • Chen, Jinzhu, Tan, Rui, Wang, Yu, Xing, Guoliang, Wang, Xiaorui, Wang, Xiaodong, Punch, B and Colbry, D, A high - fidelity temperature distribution forecasting system for data centers, Real- time systems symposium ( rtss ), 2012 ieee 33rd, 215-224, 2012 [doi]
  • Ingle, Nicholis, Door, Tim, Colbry, Dirk and Dyer, Fred, Coordination of vision and action in chameleons, 2012

2011

  • Colbry, Dirk, Reducing the barrier to entry using portable apps, Proceedings of the 2011 teragrid conference : extreme digital discovery, 47:1-47:1, 2011 [html] [doi]

2010

  • McDaniel, Troy, Villanueva, Daniel, Krishna, Sreekar, Colbry, Dirk and Panchanathan, Sethuraman, Heartbeats: a methodology to convey interpersonal distance through touch, Chi 2010 - the 28th annual chi conference on human factors in computing systems , conference proceedings and extended abstracts, 3985-3990, 2010

2009

  • Krishnan, Narayanan C , Juillard, Colin, Colbry, Dirk and Panchanathan, Sethuraman, Recognition of hand movements using wearable accelerometers, Journal of Ambient Intelligence and Smart Environments 1, 143-155, 2009 [html] [doi]
  • Colbry, Dirk and Stockman, George, The 3did face alignment system for verifying identity, Image and Vision Computing 27, 1121-1133, 2009 [html] [doi]
  • Colbry, D and Stockman, G, Real-time identification using a canonical face depth map, IET computer vision 3, 74-92, 2009 [html]
  • McDaniel, Troy L , Krishna, Sreekar, Colbry, Dirk and Panchanathan, Sethuraman, Using tactile rhythm to convey interpersonal distances to individuals who are blind, Chi '09 extended abstracts on human factors in computing systems, 4669-4674, 2009 [doi]

2008

  • Krishnan, Narayanan, Colbry, Dirk, Juillard, Colin and Panchanathan, Sethuraman, Real time human activity recognition using tri - axial accelerometers, Senser, signal and information processing ( sensip ) workshop, 2008 [html]
  • Krishna, S , Colbry, D , Black, J , Balasubramanian, V and Panchanathan, S, A systematic requirements analysis and development of an assistive device to enhance the social interaction of people who are blind or visually impaired, Workshop on computer vision applications for the visually impaired, 2008 [html]
  • David S Hayden, Dirk Colbry, Note-taker: enabling students who are legally blind to take notes in class., 10th ACM SIGACCESS Conference on Computers and Accessibility, Halifax, Canada (2008), 81-88, 2008 [doi]
  • Oki, Folarin Oki, Stockman, George and Colbry, Dirk, 3d face identification - experiments towards a large gallery, Publication: biometric technology for human identification v . edited by vijaya kumar , b . v . k .; prabhakar , salil ; ross , arun a . proceedings of the spie , volume 6944, article id. 694403, 9 pp. (2008), 2008
  • Krishna, Sreekar, Balasubramanian, Vineeth, Colbry, Dirk, Panchanathan, Sethuraman and McDaniel, Troy, Using a haptic belt to convey non - verbal communication cues during social interactions to individuals who are blind ., 2008

2007

  • Luchini-Colbry, Katy, Dirk Colbry and Punch, William, Designing introductory programming courses for graduate and undergraduate students : a parallel case study, Sigcse '89 proceedings of the twentieth sigcse technical symposium on computer science education, 2007
  • Stockman, George and Colbry, Dirk, Identity verification via the 3did face alignment system, 2007 [html]
  • Colbry, Dirk and Stockman, George, Canonical face depth map : a robust 3d representation for face verification, Ieee conference on computer vision and pattern recognition , 2007. cvpr '07., 2007 [html]

2006

  • Stockman, George, Payne, Jason, Sadler, Jermil and Colbry, Dirk, Error analysis of sensor input variations in a 3d face surface matching system., Sensor Review Journal 26, 116-121, 2006 [doi]
  • Colbry, Dirk, Human face verification by robust 3d surface alignment, 2006 [html]
  • Lu, Xiaoguang, Jain, Anil and Colbry, Dirk, Matching 2. 5d face scans to 3d models, IEEE Transactions on Pattern Analysis and Machine Intelligence 23, 31-43, 2006 [html] [doi]

2005

  • Colbry, Dirk, Stockman, George and Jain, Anil, Detection of anchor points for 3d face verification, Sensor Review Journal, 2005 [html]
  • Colbry, Dirk, Cherba, David and Luchini, John, Pattern recognition for classification and matching of car tires, Journal of Tire Science and Technology 33, 2, 2005 [doi]

2004

  • Lu, Xiaoguang, Colbry, Dirk and Jain, Anil, Three- dimensional model based face recognition, 17th international conference on pattern recognition, 2004 [html]
  • Lu, Xiaoguang, Colbry, Dirk and Jain, Anil, Matching 2. 5d scans for face recognition, International conference on biometrics, 2004

2003

  • Pollack, Martha E , Brown, Laura, Colbry, Dirk, McCarthy, Colleen, Orosz, Cheryl, Peintner, Bart, Ramakrishnan, Sailesh and Tsamardinos, Ioannis, Autominder: an intelligent cognitive orthotic system for people with memory impairment, Robotics and Autonomous Systems, 2003 [html]

2002

  • Pollack, Martha, Engberg, Sandra, Thrun, Sebastian, Brown, Laura, Colbry, Dirk, Orosz, Cheryl, Peintner, Bart, Ramakrishnan, Sailesh, Dunbar-Jacob, Jacqueline and McCarthy, Colleen, Pearl: a mobile robotic assistant for the elderly, Aaai workshop on automatino as caregiver, 2002 [html]
  • Colbry, Dirk, Peintner, Bart and Pollack, Martha, Execution monitoring with quantitative temporal bayesian networks, 6th international conference on ai planning and scheduling, 2002 [html]
  • Colbry, Dirk, Peintner, Bart and Pollack, Martha, Quantitative temporal relationships in dynamic bayesian models, Aaai spring symposium on information refinement and revision for decision making, 2002
  • Pollack, Martha, McCarthy, Colleen, Ramakrishnan, Sailesh, Tsamardinos, Ioannis, Brown, Laura, Carrion, Steve, Colbry, Dirk, Orosz, Cheryl and Peintner, Bart, Autominder: a planning , monitoring , and reminding assistive agent, 7th international conference on intelligent autonomous systems, 2002

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