This repo contains customized codes in the wheat integrative regulatory network (wGRN) project. Codes are grouped into multiple folders with appropriate comments and user manuals.
All softwares listed in system requirements could be downloaded and installed following instructions on their offical websites.
fastp(v0.20.0) kallisto(v0.46.0) tximport(v1.12.3) BWA-mem(v0.7.15) SAMTools(v1.9) MACS2(v2.1.2) GENIE3(v1.6.0) MEME(v5.0.5) R(v3.6) GeneTribe(v1.2.0) python(v3.6.8)
independent_GRN: Construction workflow of independent GRNs.
integrate_wGRN: Inference workflow of integrative networks.
The wheat integrative network (wGRN) was integrated in a user-friendly webserver for guiding functional gene discovery.