Provides a computational framework for unsupervised identification B cell clones from adaptive immune receptor repertoire sequencing (AIRR-Seq) datasets. This method is based on spectral clustering of the junction sequences of B cell receptors (BCRs, also referred to as Immunoglobulins, (Igs)) that share the same V gene, J gene and junction length.
Version: | 0.1.0 |
Depends: | R (≥ 3.1.2), ggplot2 (≥ 2.0.0) |
Imports: | alakazam (≥ 0.2.11), shazam (≥ 0.1.10), doParallel, foreach, dplyr (≥ 0.7.0), stringi, methods, stats, iterators, lazyeval |
Suggests: | knitr, rmarkdown, testthat |
Published: | 2018-10-14 |
Author: | Nima Nouri [aut, cre], Jason Vander Heiden [ctb], Steven Kleinstein [aut, cph] |
Maintainer: | Nima Nouri <nima.nouri at yale.edu> |
BugReports: | https://bitbucket.org/kleinstein/scoper/issues |
License: | CC BY-SA 4.0 |
URL: | https://scoper.readthedocs.io |
NeedsCompilation: | no |
Materials: | README NEWS |
CRAN checks: | scoper results |
Reference manual: | scoper.pdf |
Vignettes: |
%\VignetteEngine{knitr::rmarkdown}Identifying clones from high-throughput B cell repertoire sequencing data |
Package source: | scoper_0.1.0.tar.gz |
Windows binaries: | r-devel: scoper_0.1.0.zip, r-release: scoper_0.1.0.zip, r-oldrel: scoper_0.1.0.zip |
OS X binaries: | r-release: scoper_0.1.0.tgz, r-oldrel: scoper_0.1.0.tgz |
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