Reverse Causal Reasoning

An implementation of Reverse Causal Reasoning (RCR) described by [Catlett2013].

Catlett2013

Catlett, N. L., et al (2013). Reverse causal reasoning: applying qualitative causal knowledge to the interpretation of high-throughput data. BMC Bioinformatics, 14(1), 340.

pybel_tools.analysis.rcr.run_rcr(graph, tag='dgxp')[source]

Run the reverse causal reasoning algorithm on a graph.

Steps:

  1. Get all downstream controlled things into map (that have at least 4 downstream things)

  2. calculate population of all things that are downstream controlled

Note

Assumes all nodes have been pre-tagged with data

Parameters

  • graph (pybel.BELGraph) –

  • tag (str) – The key for the nodes’ data dictionaries that corresponds to the integer value for its differential expression.