Vijini Mallawaarachchi

25 papers A* 2B 1C 2Journal 17Unranked 3
YearRankTypeTitle / Venue / Authors
2025 J jnl
GraphBin-Tk: assembly graph-based metagenomic binning toolkit.
J. Open Source Softw.
Vijini Mallawaarachchi, Anuradha Wickramarachchi, Robert McArthur, Yapeng Lang, Katherine Caley, Gavin A. Huttley
2024 J jnl
Dnaapler: A tool to reorient circular microbial genomes.
J. Open Source Softw.
George Bouras, Susanna R. Grigson, Bhavya Nalagampalli Papudeshi, Vijini Mallawaarachchi, Michael J. Roach
2024 A* conf
Encoding Unitig-level Assembly Graphs with Heterophilous Constraints for Metagenomic Contigs Binning.
ICLR
Hansheng Xue, Vijini Mallawaarachchi, Lexing Xie, Vaibhav Rajan
2024 J jnl
Koverage: Read-coverage analysis for massive (meta)genomics datasets.
J. Open Source Softw.
Michael J. Roach, Bradley J. Hart, Sarah J. Beecroft, Bhavya Nalagampalli Papudeshi, Laura K. Inglis, Susanna R. Grigson, Vijini Mallawaarachchi, George Bouras, Robert A. Edwards
2024 J jnl
Solving genomic puzzles: computational methods for metagenomic binning.
Briefings Bioinform.
Vijini Mallawaarachchi, Anuradha Wickramarachchi, Hansheng Xue, Bhavya Nalagampalli Papudeshi, Susanna R. Grigson, George Bouras, Rosa E. Prahl, Anubhav Kaphle, Andrey Verich, Berenice Talamantes-Becerra, Elizabeth A. Dinsdale, Robert A. Edwards
2023 J jnl
Phables: from fragmented assemblies to high-quality bacteriophage genomes.
Bioinform.
Vijini Mallawaarachchi, Michael J. Roach, Przemyslaw Decewicz, Bhavya Nalagampalli Papudeshi, Sarah K. Giles, Susanna R. Grigson, George Bouras, Ryan D. Hesse, Laura K. Inglis, Abbey L. K. Hutton, Elizabeth A. Dinsdale, Robert A. Edwards
2023 J jnl
Plassembler: an automated bacterial plasmid assembly tool.
Bioinform.
George Bouras, Anna E. Sheppard, Vijini Mallawaarachchi, Sarah Vreugde
2022 J jnl
Accurate Binning of Metagenomic Contigs Using Composition, Coverage, and Assembly Graphs.
J. Comput. Biol.
Vijini Mallawaarachchi, Yu Lin
2022 J jnl
CH-Bin: A convex hull based approach for binning metagenomic contigs.
Comput. Biol. Chem.
Sunera Chandrasiri, Thumula Perera, Anjala Dilhara, Indika Perera, Vijini Mallawaarachchi
2022 B conf
MetaCoAG: Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs.
RECOMB
Vijini Mallawaarachchi, Yu Lin
2022 A* conf
RepBin: Constraint-Based Graph Representation Learning for Metagenomic Binning.
AAAI
Hansheng Xue, Vijini Mallawaarachchi, Yujia Zhang, Vaibhav Rajan, Yu Lin
2022 J jnl
Ten simple rules and a template for creating workflows-as-applications.
PLoS Comput. Biol.
Michael J. Roach, N. Tessa Pierce-Ward, Radoslaw Suchecki, Vijini Mallawaarachchi, Bhavya Nalagampalli Papudeshi, Scott A. Handley, C. Titus Brown, Nathan S. Watson-Haigh, Robert A. Edwards
2021 J jnl
Change Detection and Notification of Web Pages: A Survey.
ACM Comput. Surv.
Vijini Mallawaarachchi, Lakmal Meegahapola, Roshan Madhushanka, Eranga Heshan, Dulani Meedeniya, Sampath Jayarathna
2021 J jnl
Improving metagenomic binning results with overlapped bins using assembly graphs.
Algorithms Mol. Biol.
Vijini Mallawaarachchi, Anuradha Wickramarachchi, Yu Lin
2021 J jnl
RepBin: Constraint-based Graph Representation Learning for Metagenomic Binning.
CoRR
Hansheng Xue, Vijini Mallawaarachchi, Yujia Zhang, Vaibhav Rajan, Yu Lin
2020 C conf
GraphBin2: Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs.
WABI
Vijini Mallawaarachchi, Anuradha Wickramarachchi, Yu Lin
2020 J jnl
GraphBin: refined binning of metagenomic contigs using assembly graphs.
Bioinform.
Vijini Mallawaarachchi, Anuradha Wickramarachchi, Yu Lin
2020 J jnl
MetaBCC-LR: metagenomics binning by coverage and composition for long reads.
Bioinform.
Anuradha Wickramarachchi, Vijini Mallawaarachchi, Vaibhav Rajan, Yu Lin
2020 J jnl
Phylogenetic Tree Construction Using K-Mer Forest- Based Distance Calculation.
Int. J. Online Biomed. Eng.
Gihan Gamage, Nadeeshan Gimhana, Indika Perera, Shanaka Bandara, Thilina Pathirana, Anuradha Wickramarachchi, Vijini Mallawaarachchi
2019 J jnl
Change Detection and Notification of Webpages: A Survey.
CoRR
Vijini Mallawaarachchi, Lakmal Meegahapola, Roshan Alwis, Eranga Nimalarathna, Dulani Meedeniya, Sampath Jayarathna
2018 — conf
Efficient Bioinformatics Computations through GPU Accelerated Web Services.
ICACS
Vijini Mallawaarachchi, Anuradha Wickramarachchi, Anuradha Welivita, Indika Perera, Dulani Meedeniya
2018 — conf
Enhanced Student Learning in Proteomics - an Interactive Tool Support for Teaching Workflows.
TALE
Anuradha Wickramarachchi, Vijini Mallawaarachchi, Dulani Meedeniya, Indika Perera, Anuradha Welivita
2018 J jnl
Experiential Learning in Bioinformatics - Learner Support for Complex Workflow Modelling and Analysis.
Int. J. Emerg. Technol. Learn.
Vijini Mallawaarachchi, Anuradha Wickaramarachchi, Anuradha Weliwita, Indika Perera, Dulani Meedeniya
2018 — conf
Random Forest Classifier based Scheduler Optimization for Search Engine Web Crawlers.
ICSCA
Lakmal Meegahapola, Vijini Mallawaarachchi, Roshan Alwis, Eranga Nimalarathna, Dulani Meedeniya, Sampath Jayarathna
2017 C conf
Optimizing change detection in distributed digital collections: An architectural perspective of change detection.
SNPD
Lakmal Meegahapola, Roshan Alwis, Eranga Nimalarathna, Vijini Mallawaarachchi, Dulani Meedeniya, Sampath Jayarathna