BPNet Documentatation

• Installation
  • 1. Install Miniconda
  • 2. Create new virtual environment
  • 3. Install basepairmodels
• Command Line Interface
  • bpnettrainer
  • predict
  • bounds
  • metrics
  • shap_scores
  • motif_discovery
  • logits2profile
  • embeddings
• CLI Tutorial
  • 1. Experimental dataset
  • 2. Train a model!
  • 3. Predict on test set
  • 4. Compute metrics
  • 5. Compute importance scores
  • 6. Discover motifs with TF-modisco
• Modules
  • Model Architectures
  • Stats
  • Bigwig Utils
  • Loss Functions
• Miscellaneous

Indices and tables

• Index

• Module Index

• Search Page