SPASIBA specifications

Information


Unique identifier OMICS_11070
Name SPASIBA
Alternative name Spatial Bayesian Inference
Software type Package/Module
Interface Command line interface
Restrictions to use None
Input data To use SPASIBA, you need to have four data matrices under your R session: (i) a matrix of allele counts for the various reference (or training) populations; (ii) a matrix with one row per population and one column per locus giving haploid population sample size; (iii) a matrix containing coordinates of reference sampling sites and (iv) a matrix of genotypes of individuals of unknown geographic origin.
Output data The main function SPASIBA.inf return various objects stacked in a list. This includes a matrix of estimated coordinates for individuals of unknown geographic origin.
Operating system Unix/Linux, Mac OS, Windows
Programming languages R
Computer skills Advanced
Version 0.0.2
Stability Stable
Requirements INLA, RandomFields
Maintained Yes

Versioning


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Maintainer


  • person_outline Gilles Guillot <>

Publication for Spatial Bayesian Inference

SPASIBA institution(s)
Department of Applied Mathematics and Computer Science, Technical University of Denmark, Lyngby, Denmark; Centre for GeoGenetics, Natural History Museum of Denmark and University of Copenhagen, Copenhagen, Denmark
SPASIBA funding source(s)
The Danish e-Infrastructure for Computing, the working group on Computational Landscape Genomics at the National Institute for Mathematics and Biology Synthesis, a Marie-Curie Initial Training Network EUROTAST [Grant number FP7ITN-290344], the Danish Council for Independent Research, Natural Sciences, the Danish National Research Foundation [Grant number DNFR94] and Marie-Curie Actions [Career Integration Grant number FP7CIG-293845]. Florida Scrub-jays data were generated with support from the U.S. National Science Foundation [Grant number DEB-0316292].

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