TFCookbook is a R package used to model and analyze protein-DNA interactions data, and predict specific in vivo binding sites in principled way. It is currently developed and maintained by Zheng Zuo. The acompanying paper to describe the modeling principles behind this package can be accessed through (https://www.lidsen.com/journals/genetics/genetics-05-03-134#).
You can pull and install TFCookbook package through R command:
remotes::install_github("zeropin/TFCookbook")Some function of this package, such as matchPEM, is derived and modified from other packages motifmatchr and MOODS. I want to thank their generous sharing of the source codes and permission for reuse.
Please do not hesitate to contact me if you have any issue.
Zheng Zuo
