tqiaowen/lstrap-lite

Large-Scale Transcriptome Analysis Pipeline-Lite on credit card-sized ARM computer

LSTrAP-Lite

Large-Scale Transcriptome Analysis Pipeline-Lite on credit card-sized ARM computer

If you use LSTrAP-Lite in your research, please cite: Inferring biosynthetic and gene regulatory networks from Artemisia annua RNA sequencing data on a credit card-sized ARM computer. Tan and Mutwil, 2019. (https://doi.org/10.1101/661058)

What is LSTrAP-Lite?

LSTrAP-Lite is a pipeline designed for building co-expression networks from RNA-seq data (fastq files from ENA) on a lightweight, linux based device, such as the Rock64.

Below, you can find the tutorial on how to build your own co-expression networks with the source code and example data provided. An advanced tutorial on how to annotate the co-expression neighbourhood using mercator is also available.

Changelog

Tutorials

• Getting started
• Quality control
• Generating co-expression networks
• Advanced tutorial

Feel free to contact us if you have further questions.

Acknowledgements

LSTrAP-Lite will not have been possible without the various open-source projects.

Contact

Issues and feedback can be submitted through GitHub or to Qiao Wen Tan.