Gardner, University of Canterbury, NEW ZEALAND (2015) VDJtools: Unifying Post-analysis of T Cell Receptor Repertoires. The main aims of our framework are: To ensure consistency of post-analysis methods and reproducibility of obtained results to save the time of bioinformaticians analyzing TCR repertoire data by providing comprehensive tabular output and open-source API and to provide a simple enough command line tool so that immunologists and biologists with little computational background could use it to generate publication-ready results.Ĭitation: Shugay M, Bagaev DV, Turchaninova MA, Bolotin DA, Britanova OV, Putintseva EV, et al. T cell receptor repertoire analysis software#Here we present VDJtools, a software framework that can analyze output of most commonly used TCR repertoire processing tools and allows applying a diverse set of post-analysis strategies. Nevertheless, there still exists a major gap in common methods of data post-analysis in the field: there is no standardized data format so far, and most of data comparative analysis is carried out using a variety of in-house scripts. A number of recently developed software tools aim at processing immune repertoire data by mapping Variable (V), Diversity (D) and Joining (J) antigen receptor segments to sequencing reads and assembling T- and B-cell clonotypes. High-throughput profiling of T- and B-cell antigen receptor repertoires promises great advances in our understanding of the mechanisms underlying adaptive immune system function, treatment of autoimmune and infectious diseases, and development of novel approaches in cancer immunotherapy.
0 Comments
Leave a Reply. |
AuthorWrite something about yourself. No need to be fancy, just an overview. ArchivesCategories |