SPASIBA specifications

Unique identifier:
OMICS_11070
Software type:
Package/Module
Restrictions to use:
None
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.
Programming languages:
R
Version:
0.0.2
Requirements:
INLA, RandomFields
Name:
Spatial Bayesian Inference
Interface:
Command line interface
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.
Operating system:
Unix/Linux, Mac OS, Windows
Computer skills:
Advanced
Stability:
Stable
Maintained:
Yes

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SPASIBA support

Maintainer

  • Gilles Guillot <>

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Publications

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

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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