The Taiji pipeline is an integrated multi-omics analysis pipeline. It analyze and use ATAC-seq/DNase-seq, RNA-seq, HiC data to construct TF regulatory networks and identify important regulators using the personalized PageRank algorithm.
If you have used Taiji in your research, please consider cite the following paper:
Kai Zhang, Mengchi Wang, Ying Zhao, Wei Wang. (forthcoming). Systems-level identification of key transcription factors reveal transcriptional waves in mouse embryonic development. for mouse embryonic development. Science Advances.