Daniel Rokhsar

According to our database, Daniel Rokhsar authored at least 12 papers between 2005 and 2022.

Collaborative distances:

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

2022

Distributed-Memory Parallel Contig Generation for De Novo Long-Read Genome Assembly.

Giulia Guidi, Gabriel Raulet, Daniel Rokhsar, Leonid Oliker, Katherine A. Yelick, Aydin Buluç

Proceedings of the 51st International Conference on Parallel Processing, 2022

2021

BELLA: Berkeley Efficient Long-Read to Long-Read Aligner and Overlapper.

Giulia Guidi, Marquita Ellis, Daniel Rokhsar, Katherine A. Yelick, Aydin Buluç

Proceedings of the 2021 SIAM Conference on Applied and Computational Discrete Algorithms, 2021

2017

Extreme-Scale De Novo Genome Assembly.

Evangelos Georganas, Steven A. Hofmeyr, Rob Egan, Aydin Buluç, Leonid Oliker, Daniel Rokhsar, Katherine A. Yelick

CoRR, 2017

2016

Meraculous2: fast accurate short-read assembly of large polymorphic genomes.

Jarrod Chapman, Isaac Y. Ho, Eugene Goltsman, Daniel S. Rokhsar

CoRR, 2016

2015

HipMer: an extreme-scale de novo genome assembler.

Evangelos Georganas, Aydin Buluç, Jarrod Chapman, Steven A. Hofmeyr, Chaitanya Aluru, Rob Egan, Leonid Oliker, Daniel Rokhsar, Katherine A. Yelick

Proceedings of the International Conference for High Performance Computing, 2015

merAligner: A Fully Parallel Sequence Aligner.

Evangelos Georganas, Aydin Buluç, Jarrod Chapman, Leonid Oliker, Daniel Rokhsar, Katherine A. Yelick

Proceedings of the 2015 IEEE International Parallel and Distributed Processing Symposium, 2015

2014

Parallel De Bruijn Graph Construction and Traversal for De Novo Genome Assembly.

Evangelos Georganas, Aydin Buluç, Jarrod Chapman, Leonid Oliker, Daniel Rokhsar, Katherine A. Yelick

Proceedings of the International Conference for High Performance Computing, 2014

Efficient and accurate clustering for large-scale genetic mapping.

Veronika Strnadova, Aydin Buluç, Jarrod Chapman, John R. Gilbert, Joseph Gonzalez, Stefanie Jegelka, Daniel Rokhsar, Leonid Oliker

Proceedings of the 2014 IEEE International Conference on Bioinformatics and Biomedicine, 2014

2012

The Genome Portal of the Department of Energy Joint Genome Institute.

Igor V. Grigoriev, Henrik Nordberg, Igor Shabalov, Andrea Aerts, Mike Cantor, David M. Goodstein, Alan Kuo, Simon Minovitsky, Roman Nikitin, Robin A. Ohm, Robert Otillar, Alexander Poliakov, Igor Ratnere, Robert Riley, Tatyana Smirnova, Daniel Rokhsar, Inna Dubchak

Nucleic Acids Res., 2012

Phytozome: a comparative platform for green plant genomics.

David M. Goodstein, Shengqiang Shu, Russell Howson, Rochak Neupane, Richard D. Hayes, Joni Fazo, Therese Mitros, William Dirks, Uffe Hellsten, Nicholas H. Putnam, Daniel S. Rokhsar

Nucleic Acids Res., 2012

2006

<i>StellaBase</i>: The <i>Nematostella vectensis</i> Genomics Database.

James C. Sullivan, Joseph F. Ryan, James A. Watson, Jeramy Webb, James C. Mullikin, Daniel Rokhsar, John R. Finnerty

Nucleic Acids Res., 2006

2005

Transcription factor binding site identification using the self-organizing map.

Shaun Mahony, David Hendrix, Aaron Golden, Terry J. Smith, Daniel S. Rokhsar

Bioinform., 2005