Multiple open-source software are available to identify pairings for TCR alpha and beta chains or BCR heavy and light chains from bulk loading of 96-well plates. The following tools have been published and are available online:
Once alignment has been completed, the exported clonotype tables from MIXCR are used as input to the tools indicated above.
| Tools | Published year | Publication | Github |
|---|---|---|---|
| ALPHABETR | 2017 | Identifying T Cell Receptors from High-Throughput Sequencing: Dealing with Promiscuity in TCRα and TCRβ Pairing | link |
| MAD-HYPE | 2019 | A Bayesian framework for high-throughput T cell receptor pairing |
link |
| T-SHELL | 2024 | TIRTL-seq: Deep, quantitative, and affordable paired TCR repertoire sequencing | link |
Last modified:
19 May 2025
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