Similarity thresholds used in DNA sequence assembly from short reads can reduce the comparability of population histories across species
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Title
Similarity thresholds used in DNA sequence assembly from short reads can reduce the comparability of population histories across species
Authors
Keywords
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Journal
PeerJ
Volume 3, Issue -, Pages e895
Publisher
PeerJ
Online
2015-04-21
DOI
10.7717/peerj.895
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- (2014) Jeffrey M. DaCosta et al. PLoS One
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- Adaptive evolution during an ongoing range expansion: the invasive bank vole (Myodes glareolus) in Ireland
- (2013) Thomas A. White et al. MOLECULAR ECOLOGY
- Going where traditional markers have not gone before: utility of and promise for RAD sequencing in marine invertebrate phylogeography and population genomics
- (2013) A. M. Reitzel et al. MOLECULAR ECOLOGY
- Stacks: an analysis tool set for population genomics
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- Inferring Phylogeny and Introgression using RADseq Data: An Example from Flowering Plants (Pedicularis: Orobanchaceae)
- (2013) Deren A. R. Eaton et al. SYSTEMATIC BIOLOGY
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- Inferring Phylogenies from RAD Sequence Data
- (2012) Benjamin E. R. Rubin et al. PLoS One
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- (2012) Brant K. Peterson et al. PLoS One
- A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species
- (2011) Robert J. Elshire et al. PLoS One
- Local De Novo Assembly of RAD Paired-End Contigs Using Short Sequencing Reads
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- Evaluation of a Bayesian Coalescent Method of Species Delimitation
- (2011) Chi Zhang et al. SYSTEMATIC BIOLOGY
- Stacks : Building and Genotyping Loci De Novo From Short-Read Sequences
- (2011) Julian M. Catchen et al. G3-Genes Genomes Genetics
- Stampy: A statistical algorithm for sensitive and fast mapping of Illumina sequence reads
- (2010) G. Lunter et al. GENOME RESEARCH
- Resolving postglacial phylogeography using high-throughput sequencing
- (2010) K. J. Emerson et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Bayesian species delimitation using multilocus sequence data
- (2010) Z. Yang et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- How to map billions of short reads onto genomes
- (2009) Cole Trapnell et al. NATURE BIOTECHNOLOGY
- The smallest avian genomes are found in hummingbirds
- (2009) T. R. Gregory et al. PROCEEDINGS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- De novo fragment assembly with short mate-paired reads: Does the read length matter?
- (2008) M. J. Chaisson et al. GENOME RESEARCH
- Bioinformatics challenges of new sequencing technology
- (2008) Mihai Pop et al. TRENDS IN GENETICS
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