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VDJtools: Unifying Post-analysis of T Cell Receptor Repertoires

M. Shugay, DV. Bagaev, MA. Turchaninova, DA. Bolotin, OV. Britanova, EV. Putintseva, MV. Pogorelyy, VI. Nazarov, IV. Zvyagin, VI. Kirgizova, KI. Kirgizov, EV. Skorobogatova, DM. Chudakov,

. 2015 ; 11 (11) : e1004503. [pub] 20151125

Language English Country United States

Document type Journal Article

Persistent link   https://www.medvik.cz/link/bmc16020118

Despite the growing number of immune repertoire sequencing studies, the field still lacks software for analysis and comprehension of this high-dimensional data. Here we report VDJtools, a complementary software suite that solves a wide range of T cell receptor (TCR) repertoires post-analysis tasks, provides a detailed tabular output and publication-ready graphics, and is built on top of a flexible API. Using TCR datasets for a large cohort of unrelated healthy donors, twins, and multiple sclerosis patients we demonstrate that VDJtools greatly facilitates the analysis and leads to sound biological conclusions. VDJtools software and documentation are available at https://github.com/mikessh/vdjtools.

References provided by Crossref.org

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$a Turchaninova, Maria A $u Shemyakin-Ovchinnikov Institute of bioorganic chemistry RAS, Moscow, Russia. Pirogov Russian National Research Medical University, Moscow, Russia.
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$a Bolotin, Dmitriy A $u Shemyakin-Ovchinnikov Institute of bioorganic chemistry RAS, Moscow, Russia. Pirogov Russian National Research Medical University, Moscow, Russia.
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