Even better correction of genome sequencing data

2017/03/02 by Maciej Długosz, Dlugosz, Maciej, Sebastian Deorowicz +3
Agricultural and Biological Sciences · Biochemistry, Genetics and Molecular Biology · Computer Science · #Algorithms and Data Compression #Chromosomal and Genetic Variations #Distributed #FOS: Biological sciences #FOS: Computer and information sciences #Genomics (q-bio.GN) #Genomics and Phylogenetic Studies #Parallel #and Cluster Computing (cs.DC)

paper · pdf · doi:10.48550/arxiv.1703.00690

openalex publication_date 2017/03/02 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/28

Abstract

We introduce an improved version of RECKONER, an error corrector for Illumina whole genome sequencing data. By modifying its workflow we reduce the computation time even 10 times. We also propose a new method of determination of k-mer length, the key parameter of k-spectrum-based family of correctors. The correction algorithms are examined on huge data sets, i.e., human and maize genomes for both Illumina HiSeq and MiSeq instruments.

Citations

• KMC 3: counting and manipulating k-mer statistics

Related

• Correcting Illumina sequencing errors for human data
• QuorUM: an error corrector for Illumina reads
• Estimation of genome size using k-mer frequencies from corrected long reads
• Lerna: Transformer Architectures for Configuring Error Correction Tools for Short- and Long-Read Genome Sequencing
• Deep Neural Network: An Efficient and Optimized Machine Learning\n Paradigm for Reducing Genome Sequencing Error