Class Bio::Hinv::HitDefinition
In: lib/bio/io/hinv.rb
Parent: Object

serv = Bio::Hinv::HitDefinition.new serv.query("hit" => "HIT000000001") puts serv.result puts serv.data_source_definition puts serv.cdna_rep_h_invitational puts serv.cdna_splicing_isoform_curation puts serv.data_source_db_reference_protein_motif_id puts serv.data_source_identity puts serv.data_source_coverage puts serv.data_source_homologous_species puts serv.data_source_similarity_category

Methods

cdna_rep_h_invitational   cdna_splicing_isoform_curation   data_source_coverage   data_source_db_reference_protein_motif_id   data_source_definition   data_source_homologous_species   data_source_identity   data_source_similarity_category   new   result  

Included Modules

Common

Public Class methods

new()

[Source]

     # File lib/bio/io/hinv.rb, line 184
184:       def initialize
185:         @url = BASE_URI + "hit_definition.php"
186:       end

Public Instance methods

cdna_rep_h_invitational()

[Source]

     # File lib/bio/io/hinv.rb, line 207
207:       def cdna_rep_h_invitational
208:         @xml.elements['//CDNA_REP-H-INVITATIONAL'].text
209:       end
cdna_splicing_isoform_curation()

[Source]

     # File lib/bio/io/hinv.rb, line 210
210:       def cdna_splicing_isoform_curation
211:         @xml.elements['//CDNA_SPLICING-ISOFORM_CURATION'].text
212:       end
data_source_coverage()

[Source]

     # File lib/bio/io/hinv.rb, line 219
219:       def data_source_coverage
220:         @xml.elements['//DATA-SOURCE_COVERAGE'].text.to_f
221:       end
data_source_db_reference_protein_motif_id()

[Source]

     # File lib/bio/io/hinv.rb, line 213
213:       def data_source_db_reference_protein_motif_id
214:         @xml.elements['//DATA-SOURCE_DB-REFERENCE_PROTEIN-MOTIF-ID'].text
215:       end
data_source_definition()

Alias for result

data_source_homologous_species()

[Source]

     # File lib/bio/io/hinv.rb, line 222
222:       def data_source_homologous_species
223:         @xml.elements['//DATA-SOURCE_HOMOLOGOUS_SPECIES'].text
224:       end
data_source_identity()

[Source]

     # File lib/bio/io/hinv.rb, line 216
216:       def data_source_identity
217:         @xml.elements['//DATA-SOURCE_IDENTITY'].text.to_f
218:       end
data_source_similarity_category()

[Source]

     # File lib/bio/io/hinv.rb, line 225
225:       def data_source_similarity_category
226:         @xml.elements['//DATA-SOURCE_SIMILARITY-CATEGORY'].text
227:       end
result()

<?xml version=‘1.0’ encoding=‘UTF-8’?> <H-Inv> 

 <HIT_FUNCTION>
  <H-INVITATIONAL-ID>HIT000000001</H-INVITATIONAL-ID>
  <DATA-SOURCE_DEFINITION>Rho guanine nucleotide exchange factor 10.</DATA-SOURCE_DEFINITION>
  <CDNA_REP-H-INVITATIONAL>Representative transcript</CDNA_REP-H-INVITATIONAL>
  <CDNA_SPLICING-ISOFORM_CURATION></CDNA_SPLICING-ISOFORM_CURATION>
  <DATA-SOURCE_DB-REFERENCE_PROTEIN-MOTIF-ID>NP_055444</DATA-SOURCE_DB-REFERENCE_PROTEIN-MOTIF-ID>
  <DATA-SOURCE_IDENTITY>100.0</DATA-SOURCE_IDENTITY>
  <DATA-SOURCE_COVERAGE>100.0</DATA-SOURCE_COVERAGE>
  <DATA-SOURCE_HOMOLOGOUS_SPECIES>Homo sapiens</DATA-SOURCE_HOMOLOGOUS_SPECIES>
  <DATA-SOURCE_SIMILARITY-CATEGORY>Identical to known human protein(Category I).</DATA-SOURCE_SIMILARITY-CATEGORY>
 </HIT_FUNCTION>

</H-Inv>

[Source]

     # File lib/bio/io/hinv.rb, line 202
202:       def result
203:         @xml.elements['//DATA-SOURCE_DEFINITION'].text
204:       end

[Validate]