A comprehensive evaluation of assembly scaffolding tools

Keywords

ContigSequence assemblyJoinsComputer scienceGenomeComputational biologyBiologyData miningUsabilityGenetics

Affiliated Institutions

Related Publications

The Sequence of the Human Genome

J. Craig Venter , Mark D. Adams , Eugene W. Myers +97 more

A 2.91-billion base pair (bp) consensus sequence of the euchromatic portion of the human genome was generated by the whole-genome shotgun sequencing method. The 14.8-billion bp ...

2001 Science 13539 citations

Assembling millions of short DNA sequences using SSAKE

Robin M. Warren , Granger G. Sutton , Steven J.M. Jones +1 more

Abstract Summary: Novel DNA sequencing technologies with the potential for up to three orders magnitude more sequence throughput than conventional Sanger sequencing are emerging...

2006 Bioinformatics 500 citations

PCAP: A Whole-Genome Assembly Program

Xiaoqiu Huang , Jianmin Wang , Srinivas Aluru +2 more

We describe a whole-genome assembly program named PCAP for processing tens of millions of reads. The PCAP program has several features to address efficiency and accuracy issues ...

2003 Genome Research 294 citations

SHARCGS, a fast and highly accurate short-read assembly algorithm for de novo genomic sequencing

Juliane C. Dohm , Claudio Lottaz , Tatiana Borodina +1 more

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 sets quick...

2007 Genome Research 281 citations

Velvet: Algorithms for de novo short read assembly using de Bruijn graphs

Daniel R. Zerbino , Ewan Birney

We have developed a new set of algorithms, collectively called “Velvet,” to manipulate de Bruijn graphs for genomic sequence assembly. A de Bruijn graph is a compact representat...

2008 Genome Research 9539 citations

Publication Info

Year: 2014
Type: article
Volume: 15
Issue: 3
Pages: R42-R42
Citations: 182
Access: Closed

External Links

View on DOI.org

Social Impact

Altmetric

A comprehensive evaluation of assembly scaffolding tools

PlumX Metrics

Social media, news, blog, policy document mentions

Citation Metrics

182

OpenAlex

Cite This

APA Style

                            
                                
                                    Martin Hunt, 
                                
                                    Chris Newbold, 
                                
                                    Matthew Berriman
                                
                                et al.
                            
                            (2014). 
                            A comprehensive evaluation of assembly scaffolding tools. 
                            Genome biology
                            , 15
                            (3)
                            , R42-R42.
                            https://doi.org/10.1186/gb-2014-15-3-r42
                        

Identifiers

DOI: 10.1186/gb-2014-15-3-r42