Journal ArticleDOI
Genome skims analysis of betel palms (Areca spp., Arecaceae) and development of a profiling method to assess their plastome diversity.
Pauline Raimondeau,Sophie Manzi,Nicolas Brucato,Christopher Kinipi,Matthew Leavesley,François-Xavier Ricaut,Guillaume Besnard +6 more
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TLDR
In this paper, a plastome profiling approach is used for tracing the spread of matrilineages, and in combination with nuclear genomic data, can resolve the history of the betel nut.About:
This article is published in Gene.The article was published on 2021-10-20. It has received 0 citations till now. The article focuses on the topics: Areca & Betel.read more
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Fast gapped-read alignment with Bowtie 2
TL;DR: Bowtie 2 combines the strengths of the full-text minute index with the flexibility and speed of hardware-accelerated dynamic programming algorithms to achieve a combination of high speed, sensitivity and accuracy.
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MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
Kazutaka Katoh,Daron M. Standley +1 more
TL;DR: This version of MAFFT has several new features, including options for adding unaligned sequences into an existing alignment, adjustment of direction in nucleotide alignment, constrained alignment and parallel processing, which were implemented after the previous major update.
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Geneious Basic
Matthew Kearse,Richard Moir,Amy Wilson,Steven Stones-Havas,Matthew Cheung,Shane Sturrock,Simon Buxton,Alex Cooper,Sidney Markowitz,Chris Duran,Tobias Thierer,Bruce Ashton,Peter Meintjes,Alexei J. Drummond +13 more
TL;DR: Geneious Basic has been designed to be an easy-to-use and flexible desktop software application framework for the organization and analysis of biological data, with a focus on molecular sequences and related data types.
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Median-joining networks for inferring intraspecific phylogenies.
TL;DR: A method for constructing networks from recombination-free population data that combines features of Kruskal's algorithm for finding minimum spanning trees by favoring short connections, and Farris's maximum-parsimony (MP) heuristic algorithm, which sequentially adds new vertices called "median vectors", except that the MJ method does not resolve ties.
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trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses
TL;DR: TrimAl is a tool for automated alignment trimming, which is especially suited for large-scale phylogenetic analyses and can automatically select the parameters to be used in each specific alignment so that the signal-to-noise ratio is optimized.