loki.annotate.annotate_with_bulk

loki.annotate.annotate_with_bulk(img_features, bulk_features, normalize=True, T=1, tensor=False)

Annotates tissue image with similarity scores between image features and bulk RNA-seq features.

Parameters:

• img_features – Feature matrix representing histopathology image features.

• bulk_features – Feature vector representing bulk RNA-seq features.

• normalize – Whether to normalize similarity scores, default=True.

• T – Temperature parameter to control the sharpness of the softmax distribution. Higher values result in a smoother distribution.

• tensor – Feature format in torch tensor or not, default=False.

Returns:

An array or tensor containing the normalized similarity scores.