Erik Garrison

According to our database, Erik Garrison authored at least 20 papers between 2011 and 2025.

Collaborative distances:

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

2025

PangenomicsBench: A Benchmark Suite and Characterization of Pangenomics.

Noah Kaplan, Jan-Niklas Schmelzle, Yufeng Gu, Erik Garrison, Christopher Batten, Reetuparna Das

Proceedings of the IEEE International Symposium on Workload Characterization, 2025

2024

Memory makes computation universal, remember?

Erik Garrison

CoRR, 2024

Popping Bubbles in Pangenome Graphs.

Njagi Moses Mwaniki, Erik Garrison, Nadia Pisanti

CoRR, 2024

Rapid GPU-Based Pangenome Graph Layout.

Jiajie Li, Jan-Niklas Schmelzle, Yixiao Du, Simon Heumos, Andrea Guarracino, Giulia Guidi, Pjotr Prins, Erik Garrison, Zhiru Zhang

Proceedings of the International Conference for High Performance Computing, 2024

2023

Minmers are a generalization of minimizers that enable unbiased local Jaccard estimation.

Bryce Kille, Erik Garrison, Todd J. Treangen, Adam M. Phillippy

Bioinform., September, 2023

Optimal gap-affine alignment in <i>O</i>(<i>s</i>) space.

Santiago Marco-Sola, Jordan M. Eizenga, Andrea Guarracino, Benedict Paten, Erik Garrison, Miquel Moretó

Bioinform., February, 2023

Unbiased pangenome graphs.

Erik Garrison, Andrea Guarracino

Bioinform., January, 2023

Fast Exact String to D-Texts Alignments.

Njagi Moses Mwaniki, Erik Garrison, Nadia Pisanti

Proceedings of the 16th International Joint Conference on Biomedical Engineering Systems and Technologies, 2023

2022

A spectrum of free software tools for processing the VCF variant call format: vcflib, bio-vcf, cyvcf2, hts-nim and slivar.

Erik Garrison, Zev N. Kronenberg, Eric T. Dawson, Brent S. Pedersen, Pjotr Prins

PLoS Comput. Biol., 2022

ODGI: understanding pangenome graphs.

Andrea Guarracino, Simon Heumos, Sven Nahnsen, Pjotr Prins, Erik Garrison

Bioinform., 2022

2021

GRAFIMO: Variant and haplotype aware motif scanning on pangenome graphs.

Manuel Tognon, Vincenzo Bonnici, Erik Garrison, Rosalba Giugno, Luca Pinello

PLoS Comput. Biol., 2021

Efficient dynamic variation graphs.

Jordan M. Eizenga, Adam M. Novak, Emily Kobayashi, Flavia Villani, Cecilia Cisar, Simon Heumos, Glenn Hickey, Vincenza Colonna, Benedict Paten, Erik Garrison

Bioinform., 2021

2019

Viral coinfection analysis using a MinHash toolkit.

Eric T. Dawson, Sarah Wagner, David Roberson, Meredith Yeager, Joseph Boland, Erik Garrison, Stephen J. Chanock, Mark Schiffman, Tina Raine-Bennett, Thomas Lorey, Phillip E. Castle, Lisa Mirabello, Richard Durbin

BMC Bioinform., 2019

Graph-Based Representations for Supporting Genome Data Analysis and Visualization: Opportunities and Challenges.

Vincenzo Carletti, Pasquale Foggia, Erik Garrison, Luca Greco, Pierluigi Ritrovato, Mario Vento

Proceedings of the Graph-Based Representations in Pattern Recognition, 2019

2018

Superbubbles, Ultrabubbles, and Cacti.

Benedict Paten, Jordan M. Eizenga, Yohei M. Rosen, Adam M. Novak, Erik Garrison, Glenn Hickey

J. Comput. Biol., 2018

A graph-based approach to diploid genome assembly.

Shilpa Garg, Mikko Rautiainen, Adam M. Novak, Erik Garrison, Richard Durbin, Tobias Marschall

Bioinform., 2018

Haplotype-aware graph indexes.

Jouni Sirén, Erik Garrison, Adam M. Novak, Benedict Paten, Richard Durbin

Proceedings of the 18th International Workshop on Algorithms in Bioinformatics, 2018

2017

Superbubbles, Ultrabubbles and Cacti.

Benedict Paten, Adam M. Novak, Erik Garrison, Glenn Hickey

Proceedings of the Research in Computational Molecular Biology, 2017

2016

A Graph Extension of the Positional Burrows-Wheeler Transform and Its Applications.

Adam M. Novak, Erik Garrison, Benedict Paten

Proceedings of the Algorithms in Bioinformatics - 16th International Workshop, 2016

2011

BamTools: a C++ API and toolkit for analyzing and managing BAM files.

Derek W. Barnett, Erik K. Garrison, Aaron R. Quinlan, Michael Strömberg, Gabor T. Marth

Bioinform., 2011