标题
A comprehensive evaluation of assembly scaffolding tools
作者
关键词
Insert Size, Read Pair, Read Mapping, Scaffolding Algorithm, Scaffolding Tool
出版物
GENOME BIOLOGY
Volume 15, Issue 3, Pages R42
出版商
Springer Nature
发表日期
2014-03-03
DOI
10.1186/gb-2014-15-3-r42
参考文献
相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。- Chromosome-scale scaffolding of de novo genome assemblies based on chromatin interactions
- (2013) Joshua N Burton et al. NATURE BIOTECHNOLOGY
- BAIT: Organizing genomes and mapping rearrangements in single cells
- (2013) Mark Hills et al. Genome Medicine
- REAPR: a universal tool for genome assembly evaluation
- (2013) Martin Hunt et al. GENOME BIOLOGY
- Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species
- (2013) Keith R Bradnam et al. GigaScience
- Tools for mapping high-throughput sequencing data
- (2012) Nuno A. Fonseca et al. BIOINFORMATICS
- GRASS: a generic algorithm for scaffolding next-generation sequencing assemblies
- (2012) A. A. Gritsenko et al. BIOINFORMATICS
- SCARPA: scaffolding reads with practical algorithms
- (2012) N. Donmez et al. BIOINFORMATICS
- Fast gapped-read alignment with Bowtie 2
- (2012) Ben Langmead et al. NATURE METHODS
- Toward almost closed genomes with GapFiller
- (2012) Marten Boetzer et al. GENOME BIOLOGY
- SOAPdenovo2: an empirically improved memory-efficient short-read de novo assembler
- (2012) Ruibang Luo et al. GigaScience
- Fast scaffolding with small independent mixed integer programs
- (2011) L. Salmela et al. BIOINFORMATICS
- Bambus 2: scaffolding metagenomes
- (2011) Sergey Koren et al. BIOINFORMATICS
- Assemblathon 1: A competitive assessment of de novo short read assembly methods
- (2011) D. Earl et al. GENOME RESEARCH
- Efficient de novo assembly of large genomes using compressed data structures
- (2011) J. T. Simpson et al. GENOME RESEARCH
- GAGE: A critical evaluation of genome assemblies and assembly algorithms
- (2011) S. L. Salzberg et al. GENOME RESEARCH
- Opera: Reconstructing Optimal Genomic Scaffolds with High-Throughput Paired-End Sequences
- (2011) Song Gao et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- The Genomes OnLine Database (GOLD) v.4: status of genomic and metagenomic projects and their associated metadata
- (2011) I. Pagani et al. NUCLEIC ACIDS RESEARCH
- Iterative Correction of Reference Nucleotides (iCORN) using second generation sequencing technology
- (2010) Thomas D. Otto et al. BIOINFORMATICS
- Scaffolding pre-assembled contigs using SSPACE
- (2010) Marten Boetzer et al. BIOINFORMATICS
- Improving draft assemblies by iterative mapping and assembly of short reads to eliminate gaps
- (2010) Isheng J Tsai et al. GENOME BIOLOGY
- Fast and accurate short read alignment with Burrows-Wheeler transform
- (2009) H. Li et al. BIOINFORMATICS
- ABySS: A parallel assembler for short read sequence data
- (2009) J. T. Simpson et al. GENOME RESEARCH
- Ultrafast and memory-efficient alignment of short DNA sequences to the human genome
- (2009) Ben Langmead et al. GENOME BIOLOGY
- Velvet: Algorithms for de novo short read assembly using de Bruijn graphs
- (2008) D. R. Zerbino et al. GENOME RESEARCH
Become a Peeref-certified reviewer
The Peeref Institute provides free reviewer training that teaches the core competencies of the academic peer review process.
Get StartedAsk a Question. Answer a Question.
Quickly pose questions to the entire community. Debate answers and get clarity on the most important issues facing researchers.
Get Started