Collection of utilities to work with Ensembl's GraphQL service

README.md

Ensembl GraphQL

To find more information please see our docs or our public service schema explorer.

ensembl-assembly-by-accession-graphql.py

# Requires you to install gql

from gql import gql, Client
from gql.transport.aiohttp import AIOHTTPTransport
from pprint import pp

server="https://beta.ensembl.org/data/graphql"
transport = AIOHTTPTransport(url=server)

# Create a GraphQL client using the defined transport
async with Client(
  transport=transport,
  fetch_schema_from_transport=True,
) as session:
  # Provide a GraphQL query
  query = gql(
      """
      query getAssembly($accession: String!) {
        genomes(by_keyword: { assembly_accession_id: $accession}) {
          genome_id
          assembly_accession
          scientific_name
          release_number
          release_date
          taxon_id
          parlance_name
          is_reference
          assembly {
            name
            accession_id
            regions {
              name
              length
              sequence {
                checksum
              }
            }
          }
        }
      }
  """
  )

  params = { "accession" : "GCA_000001405.29" }

  # Execute the query on the transport
  result = await session.execute(query, variable_values=params)
  pp(result)