wimtrap: an R package for integrative prediction of the binding sites of plant transcription factors
Purposes of the package
Wimtrap is an R package for the prediction of Transcription Factors Binding Sites (TFBS) and corresponding genes targets. It is particularly convenient to preselect candidates targets of TFs of the plant-model Arabidopsis thaliana in specific contexts (organs, growth stages, treatments), through the implementation of a ready-to-use model that improves the accuracy of the predictions of TFs in comparison with the popular method that consists to only apply a pattern-matching analysis. The approach, that takes into account epigentic data, can be generalized to any organism.
The package can be downloaded at the following links:
Install and use wimtrap
Quentin Rivière, Massimiliano Corso, Nathalie Verbruggen and Matthieu Defrance (2019).