Related papers: RECKONER: Read Error Corrector Based on KMC
Forecasting methods are affected by data quality issues in two ways: 1. they are hard to predict, and 2. they may affect the model negatively when it is updated with new data. The latter issue is usually addressed by pre-processing the data…
Quantum computing is poised to solve practically useful problems which are computationally intractable for classical supercomputers. However, the current generation of quantum computers are limited by errors that may only partially be…
Owing to its several merits over other DNA sequencing technologies, nanopore sequencers hold an immense potential to revolutionize the efficiency of DNA storage systems. However, their higher error rates necessitate further research to…
The study of functional genomics--particularly in non-model organisms has been dramatically improved over the last few years by use of transcriptomes and RNAseq. While these studies are potentially extremely powerful, a computationally…
The choice of crossover and mutation strategies plays a crucial role in the searchability, convergence efficiency and precision of genetic algorithms. In this paper, a novel improved genetic algorithm is proposed by improving the crossover…
A major milestone of quantum error correction is to achieve the fault-tolerance threshold beyond which quantum computers can be made arbitrarily accurate. This requires extraordinary resources and engineering efforts. We show that even…
Quantum Error Correction (QEC) is essential for building robust, fault-tolerant quantum computers; however, the decoding process often presents a significant computational bottleneck. Tesseract is a novel Most-Likely-Error (MLE) decoder for…
Next generation sequencing technology rapidly produces massive volume of data and quality control of this sequencing data is essential to any genomic analysis. Here we present MEEPTOOLS, which is a collection of open-source tools based on…
Nanopore sequencing is a widely-used high-throughput genome sequencing technology that can sequence long fragments of a genome into raw electrical signals at low cost. Nanopore sequencing requires two computationally-costly processing steps…
Fault-tolerant quantum computing will require error rates far below those achievable with physical qubits. Quantum error correction (QEC) bridges this gap, but depends on decoders being simultaneously fast, accurate, and scalable. This…
Relational graph neural networks (RGNNs) are graph neural networks with dedicated structures for modeling the different types of nodes and edges in heterogeneous graphs. While RGNNs have been increasingly adopted in many real-world…
Quantum error-correction is a prerequisite for reliable quantum computation. Towards this goal, we present a recurrent, transformer-based neural network which learns to decode the surface code, the leading quantum error-correction code. Our…
Ever since deoxyribonucleic acid (DNA) was considered as a next-generation data-storage medium, lots of research efforts have been made to correct errors occurred during the synthesis, storage, and sequencing processes using error…
Quantum error correcting codes have been shown to have the ability of making quantum information resilient against noise. Here we show that we can use quantum error correcting codes as diagnostics to characterise noise. The experiment is…
Motivation: High throughput DNA sequencing (HTS) technologies generate an excessive number of small DNA segments -- called short reads -- that cause significant computational burden. To analyze the entire genome, each of the billions of…
The advent of next-generation sequencing (NGS) has revolutionized genomic research by enabling cost-effective, high-throughput sequencing of a diverse range of organisms. This breakthrough has unleashed a "Cambrian explosion" in genomic…
In near-term quantum computations that do not employ error correction, noise can proliferate rapidly, corrupting the quantum state and making results unreliable. These errors originate from both decoherence and control imprecision. The…
Metagenomics characterizes the taxonomic diversity of microbial communities by sequencing DNA directly from an environmental sample. One of the main challenges in metagenomics data analysis is the binning step, where each sequenced read is…
Quantum computers could solve problems beyond the reach of classical devices, but this potential depends on quantum error correction (QEC) to protect fragile quantum states from noise. A central challenge in QEC is decoding: inferring…
DNA is a leading candidate as the next archival storage media due to its density, durability and sustainability. To read (and write) data DNA storage exploits technology that has been developed over decades to sequence naturally occurring…