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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