SOS: online probability estimation and generation of T-and B-cell receptors

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Isacchini, Giulio | Olivares, Carlos | Nourmohammad, Armita | Walczak, Aleksandra | Mora, Thierry

Edité par CCSD ; Oxford University Press (OUP) -

International audience. Recent advances in modelling VDJ recombination and subsequent selection of T and B cell receptors provide useful tools to analyze and compare immune repertoires across time, individuals, and tissues. A suite of tools-IGoR [1], OLGA [2] and SONIA [3]-have been publicly released to the community that allow for the inference of generative and selection models from high-throughput sequencing data. However using these tools requires some scripting or command-line skills and familiarity with complex datasets. As a result the application of the above models has not been available to a broad audience. In this application note we fill this gap by presenting Simple OLGA & SONIA (SOS), a web-based interface where users with no coding skills can compute the generation and post-selection probabilities of their sequences, as well as generate batches of synthetic sequences. The application also functions on mobile phones. Availability and implementation: SOS is freely available to use at sites.google.com/view/ statbiophysens/sos with source code at github.com/statbiophys/sos.

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