An experimental Clojure API wrapping the excellent Java Ensembl library JEnsembl, http://jensembl.sourceforge.net/.
This is alpha software: it is incomplete and the API is subject to change.
Please drop me a line if you would like to help with this effort or have suggestions for how the API should shape up.
(use 'org.bioclojure.bio.ensembl.core)
(def ensreg (registry :ensembldb))
(with-registry ensreg
(list-species)
(chromosome "human" "20")
(gene "human" "ENSG00000153551"))
Alternatively, set the registry for your session:
(set-registry! ensreg)
(list-species)
(list-species :binomial)
(chromosome "human" "20")
(list-chromosomes "human")
(genes-on-region "human" "20" 1 100000)
(genes-on-region (chromosome "human" "20") 1 100000)
Copyright (C) 2012 Ray Miller [email protected].
Distributed under the Eclipse Public License, the same as Clojure.