tcR: an R package for T cell receptor repertoire advanced data analysis

Result code in IS VaVaI
<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14740%2F15%3A00085151" target="_blank" >RIV/00216224:14740/15:00085151 - isvavai.cz</a>
Result on the web
<a href="http://download.springer.com/static/pdf/403/art%253A10.1186%252Fs12859-015-0613-1.pdf?originUrl=http%3A%2F%2Fbmcbioinformatics.biomedcentral.com%2Farticle%2F10.1186%2Fs12859-015-0613-1&token2=exp=1452494593~acl=%2Fstatic%2Fpdf%2F403%2Fart%25253A10.1186%2" target="_blank" >http://download.springer.com/static/pdf/403/art%253A10.1186%252Fs12859-015-0613-1.pdf?originUrl=http%3A%2F%2Fbmcbioinformatics.biomedcentral.com%2Farticle%2F10.1186%2Fs12859-015-0613-1&token2=exp=1452494593~acl=%2Fstatic%2Fpdf%2F403%2Fart%25253A10.1186%2</a>
DOI - Digital Object Identifier
<a href="http://dx.doi.org/10.1186/s12859-015-0613-1" target="_blank" >10.1186/s12859-015-0613-1</a>

Result language
angličtina
Original language name
tcR: an R package for T cell receptor repertoire advanced data analysis
Original language description
Background The Immunoglobulins (IG) and the T cell receptors (TR) play the key role in antigen recognition during the adaptive immune response. Recent progress in next-generation sequencing technologies has provided an opportunity for the deep T cell receptor repertoire profiling. However, a specialised software is required for the rational analysis of massive data generated by next-generation sequencing. Results Here we introduce tcR, a new R package, representing a platform for the advanced analysis of T cell receptor repertoires, which includes diversity measures, shared T cell receptor sequences identification, gene usage statistics computation and other widely used methods. The tool has proven its utility in recent research studies. Conclusions tcR is an R package for the advanced analysis of T cell receptor repertoires after primary TR sequences extraction from raw sequencing reads. The stable version can be directly installed from The Comprehensive R Archive Network (http://cran
Czech name
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Czech description
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Type
J<sub>x</sub> - Unclassified - Peer-reviewed scientific article (Jimp, Jsc and Jost)
CEP classification
CE - Biochemistry
OECD FORD branch
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Project
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Continuities
I - Institucionalni podpora na dlouhodoby koncepcni rozvoj vyzkumne organizace

Publication year
2015
Confidentiality
S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

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