An experimental Clojure API wrapping the excellent Java Ensembl library JEnsembl, http:https://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.