Kipoi offers a set of postprocessing tools that enable to calculate variant effects, create mutation maps, inspect activation of hidden model layers and to calculate the gradient of layer activation with respect to a given input.

Variant effect prediction and mutation map generation is available for all models where the variant_effects parameter in the model.yaml (and dataloader.yaml) is set. Inspection of the activation of hidden model layers and calculation of gradients is available for all deep learning models: Currently supported are Keras, PyTorch and Tensorflow models. For a detailed description and examples of how to use tose features please take a look at:

• Variant effect prediction
• Mutation maps