| The UCSC genome browser database: 2015 update KR Rosenbloom, J Armstrong, GP Barber, J Casper, H Clawson, ... Nucleic acids research 43 (D1), D670-D681, 2015 | 888 | 2015 |
| Three crocodilian genomes reveal ancestral patterns of evolution among archosaurs RE Green, EL Braun, J Armstrong, D Earl, N Nguyen, G Hickey, ... Science 346 (6215), 2014 | 249 | 2014 |
| The Genome 10K Project: A Way Forward KP Koepfli, B Paten, the Genome 10K Community of Scientists, ... Annual Review of Animal Biosciences 3, 57-111, 2015 | 237 | 2015 |
| Variation graph toolkit improves read mapping by representing genetic variation in the reference E Garrison, J Sirén, AM Novak, G Hickey, JM Eizenga, ET Dawson, ... Nature biotechnology 36 (9), 875-879, 2018 | 171 | 2018 |
| SPR Distance Computation for Unrooted Trees G Hickey, F Dehne, A Rau-Chaplin, C Blouin Evolutionary Bioinformatics 4, EBO. S419, 2008 | 92 | 2008 |
| Alignathon: a competitive assessment of whole-genome alignment methods D Earl, N Nguyen, G Hickey, RS Harris, S Fitzgerald, K Beal, I Seledtsov, ... Genome research 24 (12), 2077-2089, 2014 | 85 | 2014 |
| HAL: a hierarchical format for storing and analyzing multiple genome alignments G Hickey, B Paten, D Earl, D Zerbino, D Haussler Bioinformatics 29 (10), 1341-1342, 2013 | 74 | 2013 |
| A call for benchmarking transposable element annotation methods DR Hoen, G Hickey, G Bourque, J Casacuberta, R Cordaux, C Feschotte, ... Mobile DNA 6 (1), 1-9, 2015 | 67 | 2015 |
| Building a pan-genome reference for a population N Nguyen, G Hickey, DR Zerbino, B Raney, D Earl, J Armstrong, WJ Kent, ... Journal of Computational Biology 22 (5), 387-401, 2015 | 49 | 2015 |
| Genome graphs AM Novak, G Hickey, E Garrison, S Blum, A Connelly, A Dilthey, ... bioRxiv, 101378, 2017 | 38 | 2017 |
| Superbubbles, ultrabubbles, and cacti B Paten, JM Eizenga, YM Rosen, AM Novak, E Garrison, G Hickey Journal of Computational Biology 25 (7), 649-663, 2018 | 32 | 2018 |
| Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling ES Rice, S Kohno, JS John, S Pham, J Howard, LF Lareau, BL O'Connell, ... Genome research 27 (5), 686-696, 2017 | 28 | 2017 |
| Comparative Assembly Hubs: Web Accessible Browsers for Comparative Genomics N Nguyen, G Hickey, BJ Raney, J Armstrong, H Clawson, A Zweig, J Kent, ... Bioinformatics 30 (23), 3293-301, 2014 | 27 | 2014 |
| Genotyping structural variants in pangenome graphs using the vg toolkit G Hickey, D Heller, J Monlong, JA Sibbesen, J Sirén, J Eizenga, ... Genome biology 21 (1), 1-17, 2020 | 23 | 2020 |
| Sequence variation aware genome references and read mapping with the variation graph toolkit E Garrison, J Sirén, AM Novak, G Hickey, JM Eizenga, ET Dawson, ... BioRxiv, 234856, 2017 | 18 | 2017 |
| Progressive alignment with Cactus: a multiple-genome aligner for the thousand-genome era J Armstrong, G Hickey, M Diekhans, A Deran, Q Fang, D Xie, S Feng, ... bioRxiv, 730531, 2019 | 17 | 2019 |
| A unifying model of genome evolution under parsimony B Paten, D Zerbino, G Hickey, D Haussler BMC Bioinformatics 15 (206), 2014 | 10 | 2014 |
| A probabilistic model for sequence alignment with context-sensitive indels G Hickey, M Blanchette International Conference on Research in Computational Molecular Biology, 85-103, 2011 | 10 | 2011 |
| Progressive Cactus is a multiple-genome aligner for the thousand-genome era J Armstrong, G Hickey, M Diekhans, IT Fiddes, AM Novak, A Deran, ... Nature 587 (7833), 246-251, 2020 | 9 | 2020 |
| Sequence tube maps: making graph genomes intuitive to commuters W Beyer, AM Novak, G Hickey, J Chan, V Tan, B Paten, DR Zerbino Bioinformatics 35 (24), 5318, 2019 | 7 | 2019 |
