module EnsemblRest::Mapping
Public Class Methods
map(asm_one, asm_two, species, region, opts = {})
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Convert the co-ordinates of one assembly to another
# File lib/bio-ensembl-rest/mapping.rb, line 6 def self.map(asm_one, asm_two, species, region, opts = {}) opts = EnsemblRest.parse_options opts path = EnsemblRest.build_path "/map/#{species}/#{asm_one}/#{region}/#{asm_two}", opts # TODO: ruby object? if opts['content-type'] == 'ruby' plain_opts = opts.clone plain_opts['content-type'] = 'application/json' return JSON.parse map asm_one, asm_two, species, region, plain_opts end return EnsemblRest.fetch_data path, opts, 'mapping' end
map_from_cdna(id, region, opts = {})
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Convert from CDNA coordinates to genomic coordinates
# File lib/bio-ensembl-rest/mapping.rb, line 23 def self.map_from_cdna(id, region, opts = {}) return _map_generic id, region, 'cdna', opts end
map_from_cds(id, region, opts = {})
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Convert from CDS coordinates to genomic coordinates
# File lib/bio-ensembl-rest/mapping.rb, line 29 def self.map_from_cds(id, region, opts = {}) return _map_generic id, region, 'cds', opts end
map_from_translation(id, region, opts = {})
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Convert from protein (translation) coordinates to genomic coordinates
# File lib/bio-ensembl-rest/mapping.rb, line 35 def self.map_from_translation(id, region, opts = {}) return _map_generic id, region, 'translation', opts end