scoper-package

Provides a computational framework for identification of B cell clones from Adaptive Immune Receptor Repertoire sequencing (AIRR-Seq) data. Three main functions are included (identicalClones, hierarchicalClones, and spectralClones) that perform clustering among sequences of BCRs/IGs (B cell receptors/immunoglobulins) which share the same V gene, J gene and junction length. Nouri N and Kleinstein SH (2018) tools:::Rd_expr_doi(" 10.1093/bioinformatics/bty235"). Nouri N and Kleinstein SH (2019) tools:::Rd_expr_doi(" 10.1101/788620"). Gupta NT, et al. (2017) tools:::Rd_expr_doi(" 10.4049/jimmunol.1601850").

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Provides a computational framework for identification of B cell clones from
Adaptive Immune Receptor Repertoire sequencing (AIRR-Seq) data. Three main
functions are included (identicalClones, hierarchicalClones, and spectralClones)
that perform clustering among sequences of BCRs/IGs (B cell receptors/immunoglobulins)
which share the same V gene, J gene and junction length.
Nouri N and Kleinstein SH (2018) <doi: 10.1093/bioinformatics/bty235>.
Nouri N and Kleinstein SH (2019) <doi: 10.1101/788620>.
Gupta NT, et al. (2017) <doi: 10.4049/jimmunol.1601850>.

Susanna Marquez

scoper

Spectral Clustering-Based Method for Identifying B Cell Clones

Nima Nouri

Edel Aron

Robert Bjornson

Gisela Gabernet

Cole Jensen

Huimin Lyu

Jason Vander Heiden

Steven Kleinstein

scoper-package function

Maintainer: Susanna Marquez <a href="/link/susanna.marquez%40yale.edu?package=scoper&version=1.5.0" data-mini-rdoc="scoper::susanna.marquez@yale.edu">susanna.marquez@yale.edu</a> [contributor]
Authors:<ul>
<li>Nima Nouri <a href="/link/nima.nouri%40yale.edu?package=scoper&version=1.5.0" data-mini-rdoc="scoper::nima.nouri@yale.edu">nima.nouri@yale.edu</a></li>
<li>Jason Vander Heiden <a href="/link/jason.vanderheiden%40gmail.com?package=scoper&version=1.5.0" data-mini-rdoc="scoper::jason.vanderheiden@gmail.com">jason.vanderheiden@gmail.com</a></li>
<li>Steven Kleinstein <a href="/link/steven.kleinstein%40yale.edu?package=scoper&version=1.5.0" data-mini-rdoc="scoper::steven.kleinstein@yale.edu">steven.kleinstein@yale.edu</a> [copyright holder]</li>
</ul>Other contributors:<ul>
<li>Edel Aron <a href="/link/edel.aron%40yale.edu?package=scoper&version=1.5.0" data-mini-rdoc="scoper::edel.aron@yale.edu">edel.aron@yale.edu</a> [contributor]</li>
<li>Robert Bjornson <a href="/link/robert.bjornson%40yale.edu?package=scoper&version=1.5.0" data-mini-rdoc="scoper::robert.bjornson@yale.edu">robert.bjornson@yale.edu</a> [contributor]</li>
<li>Gisela Gabernet <a href="/link/gisela.gabernet%40yale.edu?package=scoper&version=1.5.0" data-mini-rdoc="scoper::gisela.gabernet@yale.edu">gisela.gabernet@yale.edu</a> [contributor]</li>
<li>Cole Jensen <a href="/link/cole.jensen%40yale.edu?package=scoper&version=1.5.0" data-mini-rdoc="scoper::cole.jensen@yale.edu">cole.jensen@yale.edu</a> [contributor]</li>
<li>Huimin Lyu <a href="/link/huimin.lyu%40yale.edu?package=scoper&version=1.5.0" data-mini-rdoc="scoper::huimin.lyu@yale.edu">huimin.lyu@yale.edu</a> [contributor]</li>
</ul>

Author

scoper: Spectral Clustering-Based Method for Identifying B Cell Clones — scoper-package

Maintainer: Susanna Marquez <a href='mailto:susanna.marquez@yale.edu'>susanna.marquez@yale.edu</a> [contributor]
Authors:<ul>
<li>Nima Nouri <a href='mailto:nima.nouri@yale.edu'>nima.nouri@yale.edu</a></li>
<li>Jason Vander Heiden <a href='mailto:jason.vanderheiden@gmail.com'>jason.vanderheiden@gmail.com</a></li>
<li>Steven Kleinstein <a href='mailto:steven.kleinstein@yale.edu'>steven.kleinstein@yale.edu</a> [copyright holder]</li>
</ul>

Other contributors:<ul>
<li>Edel Aron <a href='mailto:edel.aron@yale.edu'>edel.aron@yale.edu</a> [contributor]</li>
<li>Robert Bjornson <a href='mailto:robert.bjornson@yale.edu'>robert.bjornson@yale.edu</a> [contributor]</li>
<li>Gisela Gabernet <a href='mailto:gisela.gabernet@yale.edu'>gisela.gabernet@yale.edu</a> [contributor]</li>
<li>Cole Jensen <a href='mailto:cole.jensen@yale.edu'>cole.jensen@yale.edu</a> [contributor]</li>
<li>Huimin Lyu <a href='mailto:huimin.lyu@yale.edu'>huimin.lyu@yale.edu</a> [contributor]</li>
</ul>

scoper: Spectral Clustering-Based Method for Identifying B Cell Clones

scoper-package: scoper: Spectral Clustering-Based Method for Identifying B Cell Clones

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