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INDRA documentation

INDRA (the Integrated Network and Dynamical Reasoning Assembler) assembles information about causal mechanisms into a common format that can be used to build several different kinds of predictive and explanatory models. INDRA was originally developed for molecular systems biology and is currently being generalized to other domains.

In molecular biology, sources of mechanistic information include pathway databases, natural language descriptions of mechanisms by human curators, and findings extracted from the literature by text mining.

Mechanistic information from multiple sources is de-duplicated, standardized and assembled into sets of Statements with associated evidence. Sets of Statements can then be used to assemble both executable rule-based models (using PySB) and a variety of different types of network models.

.. toctree::
   :maxdepth: 3

   license.rst
   installation.rst
   getting_started.rst
   modules/index
   tutorials/index
   rest_api.rst

Indices and tables