[ensembl-dev] Unable to get All Annotations in REST API

e259345 sana.basharat at metu.edu.tr
Sun Jan 14 19:46:23 GMT 2024


Hello,

I'm trying to use Ensembl VEP as part of my Masters thesis project where 
I'm building a Python package that will annotate my data using Ensembl 
VEP as well as other tools and then feed it to a model to predict an 
outcome. I'm using the GrCH37 assembly.

Initially, I was using the web version of Ensembl VEP manually to get 
annotations, but now, I want to use the REST API to integrate the 
Ensembl VEP annotation part into my code.

But upon looking at the Ensembl Rest API endpoints [1] and testing them 
out, I cannot seem to find most of the annotations that the web version 
was providing me with, namely SpliceAI, ada_score, rf_score, LOEUF, ENSP 
terms, GO terms and UNIPARC terms. Is it because these are plugins?

Can you please let me know if these annotations are provided within the 
REST API, and if so, which endpoints I can use to get them?

Thank you so much for your time and your effort.

Best regards,
Sana Basharat
Masters student (Data Informatics)
Middle East Technical University
Ankara, Turkiye

Links:
------
[1] https://rest.ensembl.org/
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