Journal Publications

Accurate Binning of Metagenomic Contigs Using Composition, Coverage, and Assembly Graphs
Nov 2022
Journal of Computational Biology, Mary Ann Liebert, Inc.
Authors: Vijini Mallawaarachchi and Yu Lin

CH-Bin: A convex hull based approach for binning metagenomic contigs
July 2022
Elsevier Computational Biology and Chemistry
Accepted for presentation at the 20th Asia Pacific Bioinformatics Conference (APBC 2022), Malaysia
Authors: Sunera Chandrasiri, Thumula Perera, Anjala Dilhara, Indika Perera and Vijini Mallawaarachchi

Improving metagenomic binning results with overlapped bins using assembly graphs
May 2021
BMC Algorithms for Molecular Biology
Authors: Vijini Mallawaarachchi, Anuradha Wickramarachchi and Yu Lin

GraphBin: Refined binning of metagenomic contigs using assembly graphs
March 2020
Bioinformatics
Authors: Vijini Mallawaarachchi, Anuradha Wickramarachchi and Yu Lin

Change Detection and Notification of Web Pages: A Survey
February 2020
ACM Computing Surveys (CSUR) Vol. 53 No. 1 Article No. 15
Authors: Vijini Mallawaarachchi, Lakmal Meegahapola, Roshan Madhushanka, Eranga Heshan, Dulani Meedeniya and Sampath Jayarathna

Experiential Learning in Bioinformatics – Learner Support for Complex Workflow Modelling and Analysis
December 2018
International Journal of Emerging Technologies in Learning (iJET) 13(12):19-34
Authors: Vijini Mallawaarachchi, Anuradha Wickramarachchi, Anuradha Welivita, Indika Perera and Dulani Meedeniya

Managing Complex Workflows in Bioinformatics – An Interactive Toolkit with GPU Acceleration
May 2018
IEEE Transactions on NanoBioscience
Authors: Anuradha Welivita, Indika Perera, Dulani Meedeniya, Anuradha Wickramarachchi and Vijini Mallawaarachchi

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Conference Publications

MetaCoAG: Binning Metagenomic Contigs via Composition, Coverage and Assembly Graphs
May 2022
26th International Conference on Research in Computational Molecular Biology (RECOMB 2022), San Diego, USA
Authors: Vijini Mallawaarachchi and Yu Lin

GraphBin2: Refined and overlapped binning of metagenomic contigs using assembly graphs
September 2020
20th International Workshop on Algorithms in Bioinformatics (WABI 2020), Pisa, Italy (Virtual Conference)
Authors: Vijini Mallawaarachchi, Anuradha Wickramarachchi and Yu Lin

MetaBCC-LR: Metagenomics Binning by Coverage and Composition for Long Reads
July 2020
28th Conference on Intelligent Systems for Molecular Biology ISMB’20 (Virtual Conference)
Authors: Anuradha Wickramarachchi, Vijini Mallawaarachchi, Vaibhav Rajan and Yu Lin

Enhanced Student Learning in Proteomics – An Interactive Tool Support for Teaching Workflows
December 2018
IEEE International Conference on Teaching, Assessment and Learning for Engineering (TALE) 2018, Wollongong, Australia
Authors: Anuradha Wickramarachchi, Vijini Mallawaarachchi, Anuradha Welivita, Indika Perera and Dulani Meedeniya

Efficient Scheduling for Scalable Bioinformatics Analysis Platform with Microservices
September 2018
18th IEEE International Conference of Advances in ICT for Emerging Regions (ICTer) 2018, Colombo, Sri Lanka
Authors: Sanduni Prasadi, Vijini Mallawaarachchi, Anuradha Wickramarachchi, Indika Perera and Dulani Meedeniya

Efficient Bioinformatics Computations through GPU Accelerated Web Services
July 2018
2018 2nd International Conference on Algorithms, Computing and Systems, Beijing, China
Authors: Vijini Mallawaarachchi, Anuradha Wickramarachchi, Anuradha Welivita, Indika Perera and Dulani Meedeniya

Random Forest Classifier based Scheduler Optimization for Search Engine Web Crawlers
February 2018
7th International Conference on Software and Computer Applications (ICSCA) 2018, Kuantan, Malaysia
Authors: Lakmal Meegahapola, Vijini Mallawaarachchi, Roshan Alwis, Eranga Nimalarathna, Dulani Meedeniya and Sampath Jayarathna
Awards: Won the excellent oral presentation certificate of the Computer Science and Information Communication session

Adaptive Technique for Web Page Change Detection using Multi-threaded Crawlers
August 2017
7th IEEE International Conference on Innovative Computing Technology (INTECH) 2017, London, United Kingdom
Authors: Lakmal Meegahapola, Roshan Alwis, Eranga Nimalarathna, Vijini Mallawaarachchi, Dulani Meedeniya and Sampath Jayarathna