Steven J. Hallam

19 papers C 4Journal 11Unranked 4
YearRankTypeTitle / Venue / Authors
2022 — conf
Aggregating Statistically Correlated Metabolic Pathways Into Groups to Improve Prediction Performance.
BIOINFORMATICS
Abdur Rahman Mohd Abul Basher, Steven J. Hallam
2021 J jnl
An integrated, modular approach to data science education in microbiology.
PLoS Comput. Biol.
Kimberly A. Dill-McFarland, Stephan G. König, Florent Mazel, David C. Oliver, Lisa M. McEwen, Kris Y. Hong, Steven J. Hallam
2021 J jnl
Hive Panel Explorer: an interactive network visualization tool.
Bioinform.
Sarah E. I. Perez, Aria S. Hahn, Martin Krzywinski, Steven J. Hallam
2021 J jnl
Leveraging heterogeneous network embedding for metabolic pathway prediction.
Bioinform.
Abdur Rahman Mohd Abul Basher, Steven J. Hallam
2021 J jnl
Metabolic Pathway Prediction Using Non-Negative Matrix Factorization with Improved Precision.
J. Comput. Biol.
Abdur Rahman Mohd Abul Basher, Ryan J. McLaughlin, Steven J. Hallam
2021 — conf
Relabeling Metabolic Pathway Data with Groups to Improve Prediction Outcomes.
ICCABS
Abdur Rahman Mohd Abul Basher, Steven J. Hallam
2020 — conf
Metabolic Pathway Prediction using Non-negative Matrix Factorization with Improved Precision.
ICCABS
Abdur Rahman Mohd Abul Basher, Ryan J. McLaughlin, Steven J. Hallam
2020 J jnl
Metabolic pathway inference using multi-label classification with rich pathway features.
PLoS Comput. Biol.
Abdur Rahman Mohd Abul Basher, Ryan J. McLaughlin, Steven J. Hallam
2020 J jnl
TreeSAPP: the Tree-based Sensitive and Accurate Phylogenetic Profiler.
Bioinform.
Connor Morgan-Lang, Ryan J. McLaughlin, Zachary Armstrong, Grace Zhang, Kevin Chan, Steven J. Hallam
2017 J jnl
IMG/VR: a database of cultured and uncultured DNA Viruses and retroviruses.
Nucleic Acids Res.
David Páez-Espino, I-Min A. Chen, Krishna Palaniappan, Anna Ratner, Ken Chu, Ernest Szeto, Manoj Pillay, Jinghua Huang, Victor M. Markowitz, Torben Nielsen, Marcel Huntemann, T. B. K. Reddy, Georgios A. Pavlopoulos, Matthew B. Sullivan, Barbara J. Campbell, Feng Chen, Katherine D. McMahon, Steven J. Hallam, Vincent J. Denef, Ricardo Cavicchioli, Sean M. Caffrey, Wolfgang R. Streit, John Webster, Kim M. Handley, Ghasem H. Salekdeh, Nicolas Tsesmetzis, João C. Setubal, Phillip B. Pope, Wen-Tso Liu, Adam R. Rivers, Natalia Ivanova, Nikos Kyrpides
2016 C conf
FAST: Fast annotation with synchronized threads.
CIBCB
Dongjae Kim, Aria S. Hahn, Niels W. Hanson, Kishori M. Konwar, Steven J. Hallam
2016 J jnl
LCA*: an entropy-based measure for taxonomic assignment within assembled metagenomes.
Bioinform.
Niels W. Hanson, Kishori M. Konwar, Steven J. Hallam
2015 C conf
Assembly independent functional annotation of short-read data using SOFA: Short-ORF functional annotation.
CIBCB
Aria S. Hahn, Niels W. Hanson, Dongjae Kim, Kishori M. Konwar, Steven J. Hallam
2015 C conf
FragGeneScan-plus for scalable high-throughput short-read open reading frame prediction.
CIBCB
Dongjae Kim, Aria S. Hahn, Shang-Ju Wu, Niels W. Hanson, Kishori M. Konwar, Steven J. Hallam
2015 J jnl
MetaPathways v2.5: quantitative functional, taxonomic and usability improvements.
Bioinform.
Kishori M. Konwar, Niels W. Hanson, Maya P. Bhatia, Dongjae Kim, Shang-Ju Wu, Aria S. Hahn, Connor Morgan-Lang, Hiu Kan Cheung, Steven J. Hallam
2014 C conf
MetaPathways v2.0: A master-worker model for environmental Pathway/Genome Database construction on grids and clouds.
CIBCB
Niels W. Hanson, Kishori M. Konwar, Shang-Ju Wu, Steven J. Hallam
2013 J jnl
Expanding the boundaries of local similarity analysis.
BMC Genom.
W. Evan Durno, Niels W. Hanson, Kishori M. Konwar, Steven J. Hallam
2013 J jnl
MetaPathways: a modular pipeline for constructing pathway/genome databases from environmental sequence information.
BMC Bioinform.
Kishori M. Konwar, Niels W. Hanson, Antoine P. Pagé, Steven J. Hallam
2013 — conf
Scalable heuristics for clustering biological graphs.
ICCABS
Inna Rytsareva, Ananth Kalyanaraman, Kishori M. Konwar, Steven J. Hallam