A multi-bin rarefying method for evaluating alpha diversities in TCR sequencing data.

ABSTRACT:

Motivation

T cell receptors (TCRs) constitute a major component of our adaptive immune system, governing the recognition and response to internal and external antigens. Studying the TCR diversity via sequencing technology is critical for a deeper understanding of immune dynamics. However, library sizes differ substantially across samples, hindering the accurate estimation/comparisons of alpha diversities. To address this, researchers frequently use an overall rarefying approach in which all samples are sub-sampled to an even depth. Despite its pervasive application, its efficacy has never been rigorously assessed.

Results

In this paper, we develop an innovative "multi-bin" rarefying approach that partitions samples into multiple bins according to their library sizes, conduct

SUBMITTER: Li M 

PROVIDER: S-EPMC11246167 | biostudies-literature | 2024 Jul

REPOSITORIES: biostudies-literature