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TransRate: reference free quality assessment of de novo transcriptome assemblies.

Abstract:

TransRate is a tool for reference-free quality assessment of de novo transcriptome assemblies. Using only the sequenced reads and the assembly as input, we show multiple common artifacts of de novo transcriptome assembly can be readily detected. These include chimeras, structural errors, incomplete assembly and base errors. TransRate evaluates these errors to produce a diagnostic quality score for each contig and these contig scores are integrated to evaluate whole assemblies. Thus TransRate ...

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Publication status:
Published
Peer review status:
Peer reviewed
Version:
Accepted manuscript

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Publisher copy:
10.1101/gr.196469.115

Authors


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Institution:
University of Oxford
Department:
Oxford, MPLS, Plant Sciences
Role:
Author
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Funding agency for:
Kelly, S
Millennium Seed Bank More from this funder
Biotechnology and Biological Sciences Research Council More from this funder
Department for International Development More from this funder
Bill and Melinda Gates Foundation More from this funder
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Publisher:
Cold Spring Harbor Laboratory Press Publisher's website
Journal:
Genome Research Journal website
Pages:
gr.196469.115-gr.196469.115
Publication date:
2016-06-05
DOI:
EISSN:
1549-5469
ISSN:
1088-9051
URN:
uuid:dfcb0f24-06fa-4510-90ff-082a8ce61ed9
Source identifiers:
628076
Local pid:
pubs:628076

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