Hey there!
I am a student trying to understand and wok with AlphaGenome.
I am unable to run DNase-Seq prediction trail for certain sub-anatomical structures like “Heart ventricular wall”. It’s reflecting an error “unsupported ontology term”.
I would really appreciate if someone could help me up in understanding this.
Thankyou.
Hi @Muskan_Sharma, welcome to the forum!
Our model is only trained on a sub-set of possible cells, based on training data available at the time that met our quality standards (please see our paper methods and supplementary tables for more info).
You can find the tracks that are available by looking at the model output metadata as follows:
from alphagenome import colab_utils
from alphagenome.models import dna_client
model = dna_client.create(colab_utils.get_api_key())
metadata = model.output_metadata().concatenate()
This creates a single Pandas dataframe that you can use to explore what predictions are available. Hope that helps!