Michael M. Hoffman

According to our database, Michael M. Hoffman authored at least 20 papers between 2004 and 2023.

Collaborative distances:

• Dijkstra number of four.
• Erdős number of four.

2023

Understanding metric-related pitfalls in image analysis validation.

Annika Reinke, Minu Tizabi, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Carole H. Sudre, Laura Ación, Michela Antonelli, Tal Arbel, Spyridon Bakas, Arriel Benis, Matthew B. Blaschko, Florian Büttner, M. Jorge Cardoso, Veronika Cheplygina, Jianxu Chen, Evangelia Christodoulou, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Luciana Ferrer, Adrian Galdran, Bram van Ginneken, Ben Glocker, Patrick Godau, Robert Haase, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Fabian Isensee, Pierre Jannin, Charles E. Kahn, Dagmar Kainmueller, Bernhard Kainz, Alexandros Karargyris, Alan Karthikesalingam, Hannes Kenngott, Jens Kleesiek, Florian Kofler, Thijs Kooi, Annette Kopp-Schneider, Michal Kozubek, Anna Kreshuk, Tahsin M. Kurç, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus H. Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Bjoern H. Menze, Karel G. M. Moons, Henning Müller, Brennan Nichyporuk, Felix Nickel, Jens Petersen, Susanne M. Rafelski, Nasir M. Rajpoot, Mauricio Reyes, Michael A. Riegler, Nicola Rieke, Julio Saez-Rodriguez, Clara I. Sánchez, Shravya Shetty, Maarten van Smeden, Ronald M. Summers, Abdel A. Taha, Aleksei Tiulpin, Sotirios A. Tsaftaris, Ben Van Calster, Gaël Varoquaux, Manuel Wiesenfarth, Ziv R. Yaniv, Paul F. Jäger, Lena Maier-Hein

CoRR, 2023

2022

Metrics reloaded: Pitfalls and recommendations for image analysis validation.

Lena Maier-Hein, Annika Reinke, Evangelia Christodoulou, Ben Glocker, Patrick Godau, Fabian Isensee, Jens Kleesiek, Michal Kozubek, Mauricio Reyes, Michael A. Riegler, Manuel Wiesenfarth, Michael Baumgartner, Matthias Eisenmann, Doreen Heckmann-Nötzel, A. Emre Kavur, Tim Rädsch, Minu Dietlinde Tizabi, Laura Ación, Michela Antonelli, Tal Arbel, Spyridon Bakas, Peter Bankhead, Arriel Benis, M. Jorge Cardoso, Veronika Cheplygina, Beth A. Cimini, Gary S. Collins, Keyvan Farahani, Bram van Ginneken, Daniel A. Hashimoto, Michael M. Hoffman, Merel Huisman, Pierre Jannin, Charles E. Kahn, Alexandros Karargyris, Alan Karthikesalingam, Hannes Kenngott, Annette Kopp-Schneider, Anna Kreshuk, Tahsin M. Kurç, Bennett A. Landman, Geert Litjens, Amin Madani, Klaus H. Maier-Hein, Anne L. Martel, Peter Mattson, Erik Meijering, Bjoern H. Menze, David Moher, Karel G. M. Moons, Henning Müller, Felix Nickel, Brennan Nichyporuk, Jens Petersen, Nasir M. Rajpoot, Nicola Rieke, Julio Saez-Rodriguez, Clarisa Sánchez Gutiérrez, Shravya Shetty, Maarten van Smeden, Carole H. Sudre, Ronald M. Summers, Abdel A. Taha, Sotirios A. Tsaftaris, Ben Van Calster, Gaël Varoquaux, Paul F. Jäger

CoRR, 2022

Assessing and assuring interoperability of a genomics file format.

Yi Nian Niu, Eric G. Roberts, Danielle Denisko, Michael M. Hoffman

Bioinform., 2022

2021

Segmentation and genome annotation algorithms for identifying chromatin state and other genomic patterns.

Maxwell W. Libbrecht, Rachel C. W. Chan, Michael M. Hoffman

PLoS Comput. Biol., 2021

Segmentation and genome annotation algorithms.

Maxwell W. Libbrecht, Rachel C. W. Chan, Michael M. Hoffman

CoRR, 2021

2020

The MCC-F1 curve: a performance evaluation technique for binary classification.

Chang Cao, Davide Chicco, Michael M. Hoffman

CoRR, 2020

2019

DNAmod: the DNA modification database.

Ankur Jai Sood, Coby Viner, Michael M. Hoffman

J. Cheminformatics, 2019

Machine learning for integrating data in biology and medicine: Principles, practice, and opportunities.

Marinka Zitnik, Francis Nguyen, Bo Wang, Jure Leskovec, Anna Goldenberg, Michael M. Hoffman

Inf. Fusion, 2019

2018

Segway 2.0: Gaussian mixture models and minibatch training.

Rachel C. W. Chan, Maxwell W. Libbrecht, Eric G. Roberts, Jeffrey A. Bilmes, William Stafford Noble, Michael M. Hoffman

Bioinform., 2018

Top considerations for creating bioinformatics software documentation.

Mehran Karimzadeh, Michael M. Hoffman

Briefings Bioinform., 2018

2017

Segway 2.0 Application Note Scripts.

Rachel C. W. Chan, Maxwell W. Libbrecht, Eric G. Roberts, Jeffrey A. Bilmes, William Stafford Noble, Michael M. Hoffman

Dataset, June, 2017

Segway 2.0 Application Note Datasets.

Rachel C. W. Chan, Maxwell W. Libbrecht, Eric G. Roberts, Jeffrey A. Bilmes, William Stafford Noble, Michael M. Hoffman

Dataset, June, 2017

2015

Statistical Inference, Learning and Models in Big Data.

Beate Franke, Jean-François Plante, Ribana Roscher, Annie Lee, Cathal Smyth, Armin Hatefi, Fuqi Chen, Einat Gil, Alexander G. Schwing, Alessandro Selvitella, Michael M. Hoffman, Roger B. Grosse, Dieter Hendricks, Nancy Reid

CoRR, 2015

Entropic Graph-based Posterior Regularization.

Maxwell W. Libbrecht, Michael M. Hoffman, Jeff A. Bilmes, William Stafford Noble

Proceedings of the 32nd International Conference on Machine Learning, 2015

2014

Comparative analysis of metazoan chromatin organization Open.

Joshua Wing Kei Ho, Youngsook L. Jung, Tao Liu, Burak Han Alver, Soohyun Lee, Kohta Ikegami, Kyung-Ah Sohn, Aki Minoda, Michael Y. Tolstorukov, Alex Appert, Stephen C. J. Parker, Tingting Gu, Anshul Kundaje, Nicole C. Riddle, Eric Bishop, Thea A. Egelhofer, Sheng'en Shawn Hu, Artyom A. Alekseyenko, Andreas Rechtsteiner, Dalal Asker, Jason A. Belsky, Sarah K. Bowman, Q. Brent Chen, Ron A.-J. Chen, Daniel S. Day, Yan Dong, Andrea C. Dose, Xikun Duan, Charles B. Epstein, Sevinc Ercan, Elise A. Feingold, Francesco Ferrari, Jacob M. Garrigues, Nils Gehlenborg, Peter J. Good, Psalm Haseley, Daniel He, Moritz Herrmann, Michael M. Hoffman, Tess E. Jeffers, Peter V. Kharchenko, Paulina Kolasinska-Zwierz, Chitra V. Kotwaliwale, Nischay Kumar, Sasha A. Langley, Erica Larschan, Isabel Latorre, Maxwell W. Libbrecht, Xueqiu Lin, Richard Park, Michael J. Pazin, Hoang N. Pham, Annette Plachetka, Bo Qin, Yuri B. Schwartz, Noam Shoresh, Przemyslaw Stempor, Anne Vielle, Chengyang Wang, Christina M. Whittle, Huiling Xue, Robert E. Kingston, Ju Han Kim, Bradley E. Bernstein, Abby F. Dernburg, Vincenzo Pirrotta, Mitzi I. Kuroda, William S. Noble, Thomas D. Tullius, Manolis Kellis, David M. MacAlpine, Susan Strome, Sarah C. R. Elgin, Xiaole Shirley Liu, Jason D. Lieb, Julie Ahringer, Gary H. Karpen, Peter J. Park

Nat., 2014

2013

Unsupervised pattern discovery in human chromatin structure through genomic segmentation.

Michael M. Hoffman, Orion J. Buske, Jie Wang, Zhiping Weng, Jeff A. Bilmes, William Stafford Noble

Proceedings of the ACM Conference on Bioinformatics, 2013

2011

Exploratory analysis of genomic segmentations with Segtools.

Orion J. Buske, Michael M. Hoffman, Nadia Ponts, Karine G. Le Roch, William Stafford Noble

BMC Bioinform., 2011

2010

The Genomedata format for storing large-scale functional genomics data.

Michael M. Hoffman, Orion J. Buske, William Stafford Noble

Bioinform., 2010

A dynamic Bayesian network for identifying protein-binding footprints from single molecule-based sequencing data.

Xiaoyu Chen, Michael M. Hoffman, Jeff A. Bilmes, Jay R. Hesselberth, William Stafford Noble

Bioinform., 2010

2004

AANT: the Amino Aciduchleotide Interaction Database.

Michael M. Hoffman, Maksim A. Khrapov, J. Colin Cox, Jianchao Yao, Lingnan Tong, Andrew D. Ellington

Nucleic Acids Res., 2004