BUCKy protocols

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BUCKy specifications

Information


Unique identifier OMICS_06056
Name BUCKy
Software type Package/Module
Interface Command line interface
Restrictions to use None
Operating system Unix/Linux
Programming languages C++
License GNU General Public License version 2.0
Computer skills Advanced
Stability Stable
Maintained Yes

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Publication for BUCKy

BUCKy in pipeline

2016
PMCID: 4868114
PMID: 26893301
DOI: 10.1093/molbev/msw038

[…] as a preprocessing step, with the bins subsequently used as input for coalescent species tree estimation; binning is shown to reduce run times, and to increase accuracy in the presence of ils ()., bucky (; ) uses a bayesian probabilistic framework to estimate a gene-to-tree map that assigns each gene to one of the (2n − 3)!! possible unrooted trees on n taxa (). a dirichlet process prior (; ) […]


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BUCKy in publications

 (161)
PMCID: 5927453
PMID: 29709000
DOI: 10.1371/journal.pone.0196500

[…] such as muscle and mesenchyme [, ]., localized maternal factors that assemble the germ plasm have been identified in other animals, such as oskar of d. melanogaster [–], pgls of c. elegans [], bucky ball of zebrafish [] and xpat of x. laevis []. these factors function to assemble other maternal mrnas and proteins in the germ plasm, and are essential for pgc formation. in this sense, popk-1 […]

PMCID: 5930398
PMID: 29725618
DOI: 10.1126/sciadv.aaq0148

[…] other chemistries (), are consistently found to have high amorphous limits. besides nitrides, c and si are examples where a strong preference for covalently bonded structures leads to a high limit. bucky-ball c60, for instance, a famous carbon allotrope, which is a molecular conformation that is above the ground-state graphite by almost half an electron volt per carbon atom (), is within […]

PMCID: 5895195
PMID: 29732268
DOI: 10.1002/aps3.1038

[…] be concatenated into a supermatrix or used for gene‐tree‐based methods of phylogenetic reconstruction, including astral‐iii (mirarab et al., ; zhang et al., ), astrid (vachaspati and warnow, ), and bucky (larget et al., ). this is especially useful with exon capture and hyb‐seq approaches, because loci are likely to be long enough to contain many variable sites and produce gene trees with high […]

PMCID: 5835537
DOI: 10.1002/jmrs.2_259

[…] explored:, implications of demonstrating 3-dimensional anatomy in two dimensions (clinical examples provided)separation of the vertical/horizontal ray and central ray when utilising the table/wall bucky respectively (theoretical basis and clinical examples provided)matching the divergent beam to patient anatomy (theoretical basis and clinical examples provided)the efficacy of utilising […]

PMCID: 5867853
PMID: 29495636
DOI: 10.3390/genes9030132

[…] into quartets of species. these quartet-based methods (e.g., the summary method accurate species tree algorithm (astral) [,,], the site-based method svdquartets [], and a hybrid method called bucky–quartet []) rely on the fact that, for a quartet of species, where only three unrooted tree topologies are possible, the species tree topology has the highest probability of occurring […]


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BUCKy institution(s)
Department of Statistics, University of Wisconsin-Madison, WI, USA

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