CoRegTor documentation

This is the documentation for CoRegTor`, which stands for CO-REulators of a Gene predicTOR, a bioinformatics tool to predict transcription co-regulator for a gene from gene expression data using random forest methods.

• Getting Started
  • Installation
• Tutorial
  • Objective
  • Step 1 : Install and import the CoRegTor package and other dependencies
  • Step 2 : Get data and load it
  • Step 3 : Create Ensemble model
  • Step 4 : Generating tree paths
  • Step 5 : Generating a set of common sub paths (or the context) for all root nodes
  • Step 6 : Comparing context of all root nodes with each other
  • Step 7 : Interactive generation of co-regulating gene clusters
• Validation of results
• The CoRegTor pipeline
• Statistical Background
• API Reference
  • create_model_input()
  • create_model()
  • tree_paths()
  • create_context()
  • transform_context()
  • compare_context()
  • identify_coregulators()