ArnovanHilten/GenNet: GenNet 2.0

What's Changed

• GenNet interpret: adds the interpretation module with six interpretation methods
  • get_weight_scores: uses the weights to calculate the importance of each feature and node
  • DeepExplain: uses the gradient (see DeepExplain) to calculate the importance
  • RLIPP: uses logistic regression with signals to and from the node to calculate a measure of non-linearity for all nodes
  • NID: Finds interacting features based on the features with the strongest weights
  • DFIM: perturbs each input (or N inputs in the order of importance), and tracks which other features change importance to find interacting features
  • PathExplain: Uses the Expected Hessian to find interacting features
• bugfixes for converting plink2 files
• module for converting toplogy to npz matrices
• add one-hot encoding support
• adds multiple filters. LocallyDirected1D now supports multiple filters akin to channels or feature maps in CNNs