Nf-core/airrflow: An adaptive immune receptor repertoire analysis workflow employing the Immcantation framework.

ABSTRACT: Adaptive Immune Receptor Repertoire sequencing (AIRR-seq) is a valuable experimental tool to study the immune state in health and following immune challenges such as infectious diseases, (auto)immune diseases, and cancer. Several tools have been developed to reconstruct B cell and T cell receptor sequences from AIRR-seq data and infer B and T cell clonal relationships. However, currently available tools offer limited parallelization across samples, scalability or portability to high-performance computing infrastructures. To address this need, we developed nf-core/airrflow, an end-to-end bulk and single-cell AIRR-seq processing workflow which integrates the Immcantation Framework following BCR and TCR sequencing data analysis best practices. The Immcantation Framework is a comprehensive too

SUBMITTER: Gabernet G 

PROVIDER: S-EPMC11305553 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature