ConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
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Title
ConPADE: Genome Assembly Ploidy Estimation from Next-Generation Sequencing Data
Authors
Keywords
Ploidy, Polyploidy, Nucleotide sequencing, Genome complexity, Genomic libraries, Sequence alignment, Sequence assembly tools, Wheat
Journal
PLoS Computational Biology
Volume 11, Issue 4, Pages e1004229
Publisher
Public Library of Science (PLoS)
Online
2015-04-17
DOI
10.1371/journal.pcbi.1004229
References
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- Dindel: Accurate indel calls from short-read data
- (2010) C. A. Albers et al. GENOME RESEARCH
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- The pursuit of genome-wide association studies: where are we now?
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