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Update TCR_motifs.rst
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@mchernigovskaya
mchernigovskaya authored Oct 14, 2024
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Expand Up @@ -282,8 +282,8 @@ VDJdb provides a database of CDR3 motifs, which you can access at https://vdjdb.

The figure below showcases a SARS-CoV-2-specific motif from VDJdb. This SARS-CoV-2-specific TCRs must have 15 amino acids long CDR3 and use the germline genes TRBV27*01 and TRBJ2-1*1.

.. image:: ../_static/figures/usecase_VDJdb_motifs_length_distribution.png
:width: 500
.. image:: ../_static/figures/VDJdb_CDR3_database.png
:width: 1500

After clicking the Export button, you will receive a TSV file containing all the members representing the given motif. To convert the set of CDR3s into a PWM compatible with LIgO, you can use the following code:

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