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Ben Langmead
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- affiliation: Johns Hopkins University, Baltimore, MD, USA
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2020 – today
- 2024
- [c11]Li Song
, Ben Langmead
Centrifuger: Lossless Compression of Microbial Genomes for Efficient and Accurate Metagenomic Sequence Classification. RECOMB 2024: 324-327 - [c10]Stephen Hwang, Nathaniel K. Brown, Omar Ahmed, Katharine M. Jenike, Sam Kovaka, Michael C. Schatz, Ben Langmead:
MEM-Based Pangenome Indexing for k-mer Queries. WABI 2024: 4:1-4:17 - [c9]Dominika Draesslerová, Omar Ahmed, Travis Gagie, Jan Holub, Ben Langmead, Giovanni Manzini, Gonzalo Navarro:
Taxonomic Classification with Maximal Exact Matches in KATKA Kernels and Minimizer Digests. SEA 2024: 10:1-10:13 - [i7]Dominika Draesslerová, Omar Ahmed, Travis Gagie, Jan Holub, Ben Langmead, Giovanni Manzini, Gonzalo Navarro:
Taxonomic classification with maximal exact matches in KATKA kernels and minimizer digests. CoRR abs/2402.06935 (2024) - [i6]Peter Peresíni, Nathaniel K. Brown, Travis Gagie, Ben Langmead:
MIOV: Reordering MOVI for even better locality. CoRR abs/2407.18956 (2024) - 2023
- [j15]Taher Mun, Naga Sai Kavya Vaddadi
Pangenomic genotyping with the marker array. Algorithms Mol. Biol. 18(1): 2 (2023) - [c8]Naga Sai Kavya Vaddadi
Minimizing Reference Bias: The Impute-First Approach for Personalized Genome Analysis. BCB 2023: 81:1 - [i5]Lore Depuydt, Travis Gagie, Ben Langmead, Giovanni Manzini, Nicola Prezza:
Suffixient Sets. CoRR abs/2312.01359 (2023) - 2022
- [j14]Massimiliano Rossi
MONI: A Pangenomic Index for Finding Maximal Exact Matches. J. Comput. Biol. 29(2): 169-187 (2022) - [j13]Massimiliano Rossi
Finding Maximal Exact Matches Using the r-Index. J. Comput. Biol. 29(2): 188-194 (2022) - [c7]Travis Gagie, Sana Kashgouli, Ben Langmead:
KATKA: A KRAKEN-Like Tool with k Given at Query Time. SPIRE 2022: 191-197 - [c6]Taher Mun
Pangenomic Genotyping with the Marker Array. WABI 2022: 19:1-19:17 - 2021
- [j12]Christopher Wilks
Megadepth: efficient coverage quantification for BigWigs and BAMs. Bioinform. 37(18): 3014-3016 (2021) - [j11]Taher Mun
LevioSAM: fast lift-over of variant-aware reference alignments. Bioinform. 37(22): 4243-4245 (2021) - [c5]Daniel N. Baker, Nathan Dyjack, Vladimir Braverman, Stephanie C. Hicks, Ben Langmead:
Fast and memory-efficient scRNA-seq k-means clustering with various distances. BCB 2021: 24:1-24:8 - [c4]Christina Boucher, Travis Gagie, Tomohiro I, Dominik Köppl
PHONI: Streamed Matching Statistics with Multi-Genome References. DCC 2021: 193-202 - [c3]Dominik Kempa
Fast and Space-Efficient Construction of AVL Grammars from the LZ77 Parsing. ESA 2021: 56:1-56:14 - [i4]Dominik Kempa, Ben Langmead:
Fast and Space-Efficient Construction of AVL Grammars from the LZ77 Parsing. CoRR abs/2105.11052 (2021) - 2020
- [j10]Charlotte A. Darby
Vargas: heuristic-free alignment for assessing linear and graph read aligners. Bioinform. 36(12): 3712-3718 (2020) - [j9]Alan Kuhnle, Taher Mun, Christina Boucher, Travis Gagie
Efficient Construction of a Complete Index for Pan-Genomics Read Alignment. J. Comput. Biol. 27(4): 500-513 (2020) - [j8]Taher Mun, Alan Kuhnle, Christina Boucher, Travis Gagie
Matching Reads to Many Genomes with the r-Index. J. Comput. Biol. 27(4): 514-518 (2020) - [i3]Christina Boucher, Travis Gagie, Tomohiro I, Dominik Köppl, Ben Langmead, Giovanni Manzini, Gonzalo Navarro, Alejandro Pacheco, Massimiliano Rossi:
PHONI: Streamed Matching Statistics with Multi-Genome References. CoRR abs/2011.05610 (2020)
2010 – 2019
- 2019
- [j7]Christina Boucher, Travis Gagie
Prefix-free parsing for building big BWTs. Algorithms Mol. Biol. 14(1): 13:1-13:15 (2019) - [j6]Ben Langmead
Scaling read aligners to hundreds of threads on general-purpose processors. Bioinform. 35(3): 421-432 (2019) - [c2]Alan Kuhnle, Taher Mun, Christina Boucher, Travis Gagie
Efficient Construction of a Complete Index for Pan-Genomics Read Alignment. RECOMB 2019: 158-173 - [i2]Taher Mun, Alan Kuhnle, Christina Boucher, Travis Gagie, Ben Langmead, Giovanni Manzini:
Matching reads to many genomes with the r-index. CoRR abs/1908.01263 (2019) - 2018
- [j5]Christopher Wilks, Phani Gaddipati
Snaptron: querying splicing patterns across tens of thousands of RNA-seq samples. Bioinform. 34(1): 114-116 (2018) - [i1]Alan Kuhnle, Taher Mun, Christina Boucher, Travis Gagie, Ben Langmead, Giovanni Manzini:
Efficient Construction of a Complete Index for Pan-Genomics Read Alignment. CoRR abs/1811.06933 (2018) - 2017
- [j4]Abhinav Nellore
Rail-RNA: scalable analysis of RNA-seq splicing and coverage. Bioinform. 33(24): 4033-4040 (2017) - 2016
- [j3]Abhinav Nellore
Rail-dbGaP: analyzing dbGaP-protected data in the cloud with Amazon Elastic MapReduce. Bioinform. 32(16): 2551-2553 (2016) - 2015
- [j2]Alyssa C. Frazee, Andrew E. Jaffe
Polyester: simulating RNA-seq datasets with differential transcript expression. Bioinform. 31(17): 2778-2784 (2015) - 2013
- [c1]Ben Langmead:
Practical software for big genomics data. ICCABS 2013: 1 - 2012
- [b1]Benjamin Thomas Langmead:
Algorithms and High Performance Computing Approaches for sequencing-based Comparative genomics. University of Maryland, College Park, MD, USA, 2012 - 2011
- [j1]Alyssa C. Frazee, Ben Langmead
ReCount: A multi-experiment resource of analysis-ready RNA-seq gene count datasets. BMC Bioinform. 12: 449 (2011)
Coauthor Index
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last updated on 2024-08-27 21:59 CEST by the dblp team
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