Tools and pipelines for BioNano data: molecule assembly pipeline and FASTA super scaffolding tool-Reference-Cited by-同舟云学术

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Tools and pipelines for BioNano data: molecule assembly pipeline and FASTA super scaffolding tool

Published:2015-09-29 Issue:1 Volume:16 Page:
ISSN:1471-2164
Container-title:BMC Genomics
language:en
Short-container-title:BMC Genomics

Author:

Shelton Jennifer M.,Coleman Michelle C.,Herndon Nic,Lu Nanyan,Lam Ernest T.,Anantharaman Thomas,Sheth Palak,Brown Susan J.

Funder

Institutional Development Award (IDeA) from the National Institute of General Medical Sciences of the National Institutes of Health

Publisher

Springer Science and Business Media LLC

Subject

Genetics,Biotechnology

Link

http://link.springer.com/content/pdf/10.1186/s12864-015-1911-8

Reference18 articles.

1. Salzberg SL, Phillippy AM, Zimin A, Puiu D, Magoc T, Koren S, et al. Gage: A critical evaluation of genome assemblies and assembly algorithms. Genome Res. 2012; 22(6). doi: 10.1101/gr.131383.111 .

2. Vezzi F, Narzisi G, Mishra B. Feature-by-feature—evaluating de novo sequence assembly. PLoS ONE. 2012; 7(2). doi: 10.1371/journal.pone.0031002 .

3. Bradnam K, Faas J, Alexandrov A, Baranay P, Bechner M, Birol I, et al. Assemblathon 2: evaluating de novo methods of genome assembly in three vertebrate species. GigaScience. 2013; 2(10). doi: 10.1186/2047-217X-2-10 .

4. Das SK, Austin MD, Akana MC, Deshpande P, Cao H, Xiao M. Single molecule linear analysis of dna in nano-channel labeled with sequence specific fluorescent probes. Nucleic Acids Res. 2010; 38(e177). doi: 10.1093/nar/gkq673 .

5. PacBio P6-C4 Chemistry Specifications. http://investor.pacificbiosciences.com/releasedetail.cfm?ReleaseID=876252 .

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