I know that I can retrieve all the information from the ensembl plant division with this link:
Same way I can also retrieve all informatino from the ensembl fungi division with the following:
And same for bacteria, metazoa and protists.
The information obtained is in JSON format and contains many fields, such as:
- assembly_id, assembly_level, assembly_name, base_count, dbname, division, genebuild, has_genome_alignments, has_other_alignments, has_pan_compara, has_peptide_compara, has_variations, is_reference, name, serotype, species, species_id, species_taxonomy_id, strain and taxonomy_id.
Is there any way to use the Ensembl REST GET url specifying to retrieve only the "species" field? And to retrieve only many fields (such as division and assembly_name for example)?
thank you very much!
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ignasi_11 •
2 answers
The script from shengweima will work I guess. However, this is getting all the data and than just pick the field you want to have - which most likely will be the only option to do it.
P.S.: Here you can get a list of species http://rest.ensembl.org/documentation/info/species - I don't know if that is useful for you.
I have give you python script on there enter link description here
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