New algorithms for accurate and efficient de novo genome assembly from long DNA sequencing reads
L Gonzalez-Garcia… - Life Science …, 2023 - life-science-alliance.org
Building de novo genome assemblies for complex genomes is possible thanks to long-read
DNA sequencing technologies. However, maximizing the quality of assemblies based on …
DNA sequencing technologies. However, maximizing the quality of assemblies based on …
IDBA-UD: a de novo assembler for single-cell and metagenomic sequencing data with highly uneven depth
Motivation: Next-generation sequencing allows us to sequence reads from a microbial
environment using single-cell sequencing or metagenomic sequencing technologies …
environment using single-cell sequencing or metagenomic sequencing technologies …
Assemblathon 1: a competitive assessment of de novo short read assembly methods
Low-cost short read sequencing technology has revolutionized genomics, though it is only
just becoming practical for the high-quality de novo assembly of a novel large genome. We …
just becoming practical for the high-quality de novo assembly of a novel large genome. We …
[HTML][HTML] Evaluation of Methods for De Novo Genome Assembly from High-Throughput Sequencing Reads Reveals Dependencies That Affect the Quality of the …
Recent developments in high-throughput sequencing technology have made low-cost
sequencing an attractive approach for many genome analysis tasks. Increasing read …
sequencing an attractive approach for many genome analysis tasks. Increasing read …
[HTML][HTML] Meraculous: De Novo Genome Assembly with Short Paired-End Reads
JA Chapman, I Ho, S Sunkara, S Luo, GP Schroth… - PloS one, 2011 - journals.plos.org
We describe a new algorithm, meraculous, for whole genome assembly of deep paired-end
short reads, and apply it to the assembly of a dataset of paired 75-bp Illumina reads derived …
short reads, and apply it to the assembly of a dataset of paired 75-bp Illumina reads derived …
Evaluating long-read de novo assembly tools for eukaryotic genomes: insights and considerations
BM Cosma, R Shirali Hossein Zade, EN Jordan… - …, 2023 - academic.oup.com
Background Assembly algorithm choice should be a deliberate, well-justified decision when
researchers create genome assemblies for eukaryotic organisms from third-generation …
researchers create genome assemblies for eukaryotic organisms from third-generation …
[HTML][HTML] HGA: de novo genome assembly method for bacterial genomes using high coverage short sequencing reads
AA Al-Okaily - BMC genomics, 2016 - Springer
Background Current high-throughput sequencing technologies generate large numbers of
relatively short and error-prone reads, making the de novo assembly problem challenging …
relatively short and error-prone reads, making the de novo assembly problem challenging …
[HTML][HTML] Ray: simultaneous assembly of reads from a mix of high-throughput sequencing technologies
S Boisvert, F Laviolette, J Corbeil - 2010 - liebertpub.com
An accurate genome sequence of a desired species is now a pre-requisite for genome
research. An important step in obtaining a high-quality genome sequence is to correctly …
research. An important step in obtaining a high-quality genome sequence is to correctly …
[HTML][HTML] Empirical evaluation of methods for de novo genome assembly
F Dida, G Yi - PeerJ Computer Science, 2021 - peerj.com
Technologies for next-generation sequencing (NGS) have stimulated an exponential rise in
high-throughput sequencing projects and resulted in the development of new read …
high-throughput sequencing projects and resulted in the development of new read …
SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing
The latest revolution in the DNA sequencing field has been brought about by the
development of automated sequencers that are capable of generating giga base pair data …
development of automated sequencers that are capable of generating giga base pair data …