NeoPredPipe

NeoPredPipe, (Neoantigen Prediction Pipeline) is a tool to predict putative neoantigens and assess their potential for immune recognition in cancer. As next-generation sequencing technologies rapidly advance, providing detailed molecular profiles of patient tumors, there is an increasing need for high-throughput methods to analyze this data, particularly in developing effective immunotherapies. Neoantigens, which arise from tumor-specific variants, hold significant promise as targets for immunotherapy due to their potential to stimulate an immune response against cancer cells.

NeoPredPipe addresses this need by offering a streamlined and efficient pipeline for analyzing single and multi-region tumor samples. It processes somatic mutation calls and, when available, patient HLA haplotypes to predict neoantigen burdens and provide insights into tumor heterogeneity. This capability is crucial for understanding the complexity of cancer and identifying potential targets for immunotherapy.

One of the key strengths of NeoPredPipe is its ability to rapidly deliver comprehensive, valuable summary information to both researchers and clinicians. This information includes insights into neoantigen heterogeneity, burden, and the potential for immune stimulation, which are essential for developing and optimizing personalized cancer immunotherapies.