Satish Narayanasamy

mm2-gb accelerates Minimap2's chaining step on GPU, improving performance for long DNA reads without sacrificing accuracy.

This paper introduces a universal bacterial identification system using ITS-targeting primers that outperforms existing methods in speed, cost, and taxonomic breadth.

This work extends vcfdist to jointly benchmark SNPs, INDELs, and SVs, showing error reductions and improved accuracy over previous methods.

SECRET-GWAS enables privacy-preserving, population-scale GWAS by optimizing secure computing for linear and logistic regression on large datasets.

DTWax optimizes the sDTW algorithm for GPU to improve sequencing speed and compute efficiency in nanopore sequencing.

The paper introduces vcfdist, a tool that improves the accuracy of benchmarking phased small variant calls in human genomes by addressing biases in variant representation and evaluation methods.

nPoRe improves INDEL recall in nanopore sequencing by extending gap penalties in alignment, achieving 73.04% recall with no loss of precision.

The paper accelerates Minimap2 for long read alignment on GPUs by optimizing the chaining step, achieving significant speedup and cost reduction.

RawMap is a fast and accurate classifier for filtering non-target reads in real-time nanopore sequencing, improving efficiency and reducing costs.

This paper introduces Threshold Sequencing and LAMPrey to enable ultra-rapid somatic variant detection in under 30 minutes using real-time sequencing and targeted amplification.

The paper introduces an optimized data structure for read alignment, improving performance while maintaining accuracy.