Dataset simulation with LIgO

For simulation of AIRR datasets with user-defined signals, immuneML uses LIgO. It supports simulation on both repertoire and receptor level. For more details on the decisions behind simulation, see the Methods section of the original paper:

Chernigovskaya, M., et al. (2023). Simulation of adaptive immune receptors and repertoires with complex immune information to guide the development and benchmarking of AIRR machine learning (p. 2023.10.20.562936). bioRxiv. https://doi.org/10.1101/2023.10.20.562936

• YAML specification of the LigoSim instruction for introducing immune signals
• How to simulate co-occuring immune signals
• Paired chain simulations in LIgO
• Simulation with custom signal functions