Publications by authors named "Hiruna Samarakoon"

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Leveraging basecaller's move table to generate a lightweight k-mer model for nanopore sequencing analysis.
Hiruna Samarakoon, Yuk Kei Wan, Sri Parameswaran, Jonathan Göke, Hasindu Gamaarachchi

Bioinformatics· March 2025

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The enduring advantages of the SLOW5 file format for raw nanopore sequencing data.
Hasindu Gamaarachchi, Sasha Jenner, Hiruna Samarakoon, James M Ferguson, Ira W Deveson

Gigascience· January 2025

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Interactive visualization of nanopore sequencing signal data with Squigualiser.
Hiruna Samarakoon, Kisaru Liyanage, James M Ferguson, Sri Parameswaran, Hasindu Gamaarachchi

Bioinformatics· August 2024

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Simulation of nanopore sequencing signal data with tunable parameters.
Hasindu Gamaarachchi, James M Ferguson, Hiruna Samarakoon, Kisaru Liyanage, Ira W Deveson

Genome Res· June 2024

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Efficient end-to-end long-read sequence mapping using minimap2-fpga integrated with hardware accelerated chaining.
Kisaru Liyanage, Hiruna Samarakoon, Sri Parameswaran, Hasindu Gamaarachchi

Sci Rep· November 2023

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Chloroplast genome, nuclear ITS regions, mitogenome regions, and Skmer analysis resolved the genetic relationship among Cinnamomum species in Sri Lanka.
Pradeepa C G Bandaranayake, Nathasha Naranpanawa, C H W M R Bhagya Chandrasekara, Hiruna Samarakoon, S Lokuge

PLoS One· September 2023

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Accelerated nanopore basecalling with SLOW5 data format.
Hiruna Samarakoon, James M Ferguson, Hasindu Gamaarachchi, Ira W Deveson

Bioinformatics· June 2023

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Flexible and efficient handling of nanopore sequencing signal data with slow5tools.
Hiruna Samarakoon, James M Ferguson, Sasha P Jenner, Timothy G Amos, Sri Parameswaran

Genome Biol· April 2023

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Fast nanopore sequencing data analysis with SLOW5.
Hasindu Gamaarachchi, Hiruna Samarakoon, Sasha P Jenner, James M Ferguson, Timothy G Amos

Nat Biotechnol· July 2022

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Genopo: a nanopore sequencing analysis toolkit for portable Android devices.
Hiruna Samarakoon, Sanoj Punchihewa, Anjana Senanayake, Jillian M Hammond, Igor Stevanovski

Commun Biol· September 2020

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GPU accelerated adaptive banded event alignment for rapid comparative nanopore signal analysis.
Hasindu Gamaarachchi, Chun Wai Lam, Gihan Jayatilaka, Hiruna Samarakoon, Jared T Simpson

BMC Bioinformatics· August 2020

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