AdmixRelate: Difference between revisions
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Software for | Software for inferring relatedness even if the individuals are admixed. To infer the relatedness you will need to known the individuals admixture proportions and the allele frequencies in each of the possible populations. This can be done e.g. using the program Admixture. | ||
=Installation= | =Installation= | ||
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== Download == | == Download == | ||
[http://www.popgen.dk/software/download/ Download folder] | [http://www.popgen.dk/software/download/relateAdmix Download folder] | ||
== Installation of R package == | == Installation of R package == | ||
<pre> | <pre> | ||
wget http://www.popgen.dk/software/download/relateAdmix/relateAdmix_0. | wget http://www.popgen.dk/software/download/relateAdmix/relateAdmix_0.05.tar.gz | ||
R CMD INSTALL relateAdmix_0. | R CMD INSTALL relateAdmix_0.05.tar.gz | ||
</pre> | </pre> | ||
=Run example= | =Run example= | ||
== Run example using R == | |||
After installing the package you can load it into R and try the example | |||
<pre> | |||
library(relateAdmix) | |||
example(relate) | |||
</pre> | |||
This shows an example of how to use the package. More information can be found in the man pages | |||
<pre> | |||
?relate | |||
</pre> | |||
Latest revision as of 13:19, 21 August 2013
Software for inferring relatedness even if the individuals are admixed. To infer the relatedness you will need to known the individuals admixture proportions and the allele frequencies in each of the possible populations. This can be done e.g. using the program Admixture.
Installation
Download
Installation of R package
wget http://www.popgen.dk/software/download/relateAdmix/relateAdmix_0.05.tar.gz R CMD INSTALL relateAdmix_0.05.tar.gz
Run example
Run example using R
After installing the package you can load it into R and try the example
library(relateAdmix) example(relate)
This shows an example of how to use the package. More information can be found in the man pages
?relate