FinisherSC: A repeat-aware tool for upgrading de novo assembly using long reads

Bioinformatics

Volumn 31, Issue 19, 2015, Pages 3207-3209

  Lam, Ka Kit ^a   Labutti, Kurt ^b   Khalak, Asif ^c,e   Tse, David ^a,d  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b U S DEPARTMENT OF ENERGY   (United States)

^c PACIFIC BIOSCIENCES   (United States)

^d Stanford University   (United States)

^e Samsung SSIC mHealth   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ALGORITHM; ANIMAL; BIOLOGY; CAENORHABDITIS ELEGANS; COMPUTER PROGRAM; DNA SEQUENCE; DROSOPHILA; GENETICS; GENOMICS; HIGH THROUGHPUT SEQUENCING; NUCLEOTIDE REPEAT; PROCEDURES; SACCHAROMYCES CEREVISIAE; STATISTICAL MODEL;

ALGORITHMS; ANIMALS; CAENORHABDITIS ELEGANS; COMPUTATIONAL BIOLOGY; DROSOPHILA; GENOMICS; HIGH-THROUGHPUT NUCLEOTIDE SEQUENCING; MODELS, STATISTICAL; REPETITIVE SEQUENCES, NUCLEIC ACID; SACCHAROMYCES CEREVISIAE; SEQUENCE ANALYSIS, DNA; SOFTWARE;

EID: 84943421204     PISSN: 13674803     EISSN: 14602059     Source Type: Journal    
DOI: 10.1093/bioinformatics/btv280     Document Type: Article

References (6)

1. Chin, C.-S. et al. (2013) Nonhybrid, finished microbial genome assemblies from long-read smrt sequencing data. Nat. Methods, 10, 563-569
2. English, A.C. et al. (2012) Mind the gap: Upgrading genomes with pacific biosciences rs long-read sequencing technology. PLoS One, 7, 47768
3. Gurevich, A. et al. (2013) Quast: quality assessment tool for genome assemblies. Bioinformatics, 29, 1072-1075
4. Kurtz, S. et al. (2004) Versatile and open software for comparing large genomes. Genome Biol., 5, R12.
5. Lam, K.-K. et al. (2014) Near-optimal assembly for shotgun sequencing with noisy reads. BMC Bioinformatics, 15 (Suppl. 9), S4
6. Myers, E.W. et al. (2000) A whole-genome assembly of Drosophila. Science, 287, 2196-2204