All-in-one analysis pipeline
Taiji is an integrative analysis pipeline for analyzing bulk/single-cell ATAC-seq and RNA-seq data. Please go to this website for documentation and tutorials.
The design philosophy of the Taiji pipeline is focused on:
We achieve these at the expense of customization. This will be improved in the future.
Pre-built binaries are available for macOS and Linux system:
taiji-CentOS-x86_64
: for Red Hat Enterprise Linux derivatives.
taiji-Ubuntu-x86_64
: for Debian linux derivatives.
taiji-macOS-XX-XX
: for macOS.
Example:
curl -L https://github.com/Taiji-pipeline/Taiji/releases/latest/download/taiji-CentOS-x86_64 -o taiji
chmod +x taiji
./taiji --help
If you have used Taiji in your research, please consider citing the following paper:
K. Zhang, M. Wang, Y. Zhao, W. Wang, Taiji: System-level identification of key transcription factors reveals transcriptional waves in mouse embryonic development. Sci. Adv. 5, eaav3262 (2019).