CausalR (version 1.4.3)

CausalR-package: The CausalR package

Description

Causal Reasoning algorithms for biological networks, including predictions, scoring, p-value calculation and ranking.

Details

The most important functions are:

• CreateCCG: read a computational causal graph from a .sif file
• ReadExperimentalData: read a experimental data from a .txt file
• MakePredictions: make causal reasoning predictions from a CCG
• ScoreHypothesis: score causal reasoning predictions
• CalculateSignificance: calculate statisitical significance of a result
• RankTheHypotheses: compare different possible hypotheses on a single CCG

References

• "Causal reasoning on biological networks: interpreting transcriptional changes", Chindelevitch et al., Bioinformatics 28 1114 (2012). doi:10.1093/bioinformatics/bts090
• "Assessing statistical significance in causal graphs", Chindelevitch et al., BMC Bioinformatics 13 35 (2012). doi:10.1186/1471-2105-13-35