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MOZI-AI / knowledge-import

Import scripts for the Bio-Atomspace
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GO with no genes associated? #31

Open leungmanhin opened 4 years ago

leungmanhin commented 4 years ago

Looks like there are a lot of GO categories that are the leaf nodes yet have no gene members associated, is it normal?

To list them out in Scheme:

(use-modules (opencog) (opencog bioscience))

; Change the below paths as needed:
(primitive-load "GO_2020-04-01.scm")
(primitive-load "GO_annotation_gene-level_2020-04-01.scm")
(primitive-load "Go-Plus-GO_2020-05-04.scm")

(filter
  (lambda (c)
    (and
      (string-prefix? "GO:" (cog-name c))
      ; Has no child nodes
      (= (length (filter (lambda (i) (equal? (gdr i) c)) (cog-incoming-by-type c 'InheritanceLink))) 0)
      ; Has no members
      (= (length (filter (lambda (i) (equal? (gdr i) c)) (cog-incoming-by-type c 'MemberLink))) 0)))
  (cog-get-atoms 'ConceptNode))