Module: ReactomePathway

Extended by:
Entity
Defined in:
lib/rbbt/sources/reactome.rb

Class Method Summary collapse

Class Method Details

.filter(query, field = nil, options = nil, entity = nil) ⇒ Object 



109
110
111
112
113
114
115
 
# File 'lib/rbbt/sources/reactome.rb', line 109

def self.filter(query, field = nil, options = nil, entity = nil)
  return true if query == entity

  return true if self.setup(entity.dup, options.merge(:format => field)).name.index query

  false
end

.gene_index ⇒ Object 



105
106
107
 
# File 'lib/rbbt/sources/reactome.rb', line 105

def self.gene_index
  @gene_index ||= Reactome.protein_pathways.tsv(:persist => true, :key_field => "Reactome Pathway ID", :fields => ["UniProt/SwissProt Accession"], :type => :flat, :merge => true)
end

.name_index ⇒ Object 



101
102
103
 
# File 'lib/rbbt/sources/reactome.rb', line 101

def self.name_index
  @name_index ||= Reactome.pathway_names.tsv(:persist => true, :key_field => "Reactome Pathway ID", :fields => ["Pathway Name"], :type => :single)
end