Change-O consists in a software package for B/T cell receptor V(D)J gene assignment, clonality inference and germline reconstruction. Change-O makes part of immcantation framework and I highly encourage the reading of Change-O github page here.
In order to run Change-O's automatization scripts, some pieces of software are required or encourage to be used:
- Anaconda is an package and enviroment manager that exists to facilitates our lifes. You can find basic instruction to install and create anaconda's enviroment here.
- R is the programming language required to run the scripts.
- awk programming language is also required to run Change-O's automation scripts. A
pip install awkinside an anaconda enviroment should be enough to make the magic happens.