Publications by authors named "Sri Parameswaran"

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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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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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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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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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Efficient real-time selective genome sequencing on resource-constrained devices.
Po Jui Shih, Hassaan Saadat, Sri Parameswaran, Hasindu Gamaarachchi

Gigascience· December 2022

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

Nat Biotechnol· July 2022

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Cache Friendly Optimisation of de Bruijn Graph Based Local Re-Assembly in Variant Calling.
Hasindu Gamaarachchi, Arash Bayat, Bruno Gaeta, Sri Parameswaran

IEEE/ACM Trans Comput Biol Bioinform· April 2021

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Fast Short Read De-Novo Assembly Using Overlap-Layout-Consensus Approach.
Arash Bayat, Nandan P Deshpande, Marc R Wilkins, Sri Parameswaran

IEEE/ACM Trans Comput Biol Bioinform· January 2021

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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, Sri Parameswaran

BMC Bioinformatics· August 2020

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Pairwise alignment of nucleotide sequences using maximal exact matches.
Arash Bayat, Bruno Gaëta, Aleksandar Ignjatovic, Sri Parameswaran

BMC Bioinformatics· May 2019

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Featherweight long read alignment using partitioned reference indexes.
Hasindu Gamaarachchi, Sri Parameswaran, Martin A Smith

Sci Rep· March 2019

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Improved VCF normalization for accurate VCF comparison.
Arash Bayat, Bruno Gaëta, Aleksandar Ignjatovic, Sri Parameswaran

Bioinformatics· April 2017

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