Package: scoper
Type: Package
Version: 1.1.0
Date: 2020-08-10
Authors@R: c(person("Nima", "Nouri", role=c("aut"), 
                    email="nima.nouri@yale.edu"),
             person("Edel", "Aron", role=c("ctb"), 
                    email="edel.aron@yale.edu"),
             person("Jason", "Vander Heiden", role=c("aut", "cre"), 
                    email="jason.vanderheiden@gmail.com"),
             person("Steven", "Kleinstein", role=c("aut", "cph"), 
                    email="steven.kleinstein@yale.edu"))
Title: Spectral Clustering-Based Method for Identifying B Cell Clones
Description: 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>.
License: AGPL-3
URL: https://scoper.readthedocs.io
BugReports: https://bitbucket.org/kleinstein/scoper/issues
LazyData: true
BuildVignettes: true
VignetteBuilder: knitr
Encoding: UTF-8
SystemRequirements: C++11
Depends: R (>= 3.5.0), ggplot2 (>= 3.2.0)
Imports: alakazam (>= 1.0.2), shazam (>= 1.0.1), data.table,
        doParallel, dplyr (>= 0.8.1), foreach, methods, Rcpp (>=
        0.12.12), rlang, scales, stats, stringi, tidyr (>= 1.0.0)
LinkingTo: Rcpp
Suggests: knitr, rmarkdown, testthat
RoxygenNote: 7.1.1
Collate: 'Data.R' 'Scoper.R' 'Functions.R' 'RcppExports.R'
NeedsCompilation: yes
Packaged: 2020-08-10 21:24:22 UTC; vandej27
Author: Nima Nouri [aut],
  Edel Aron [ctb],
  Jason Vander Heiden [aut, cre],
  Steven Kleinstein [aut, cph]
Maintainer: Jason Vander Heiden <jason.vanderheiden@gmail.com>
Repository: CRAN
Date/Publication: 2020-08-10 21:50:02 UTC
Built: R 3.6.3; x86_64-w64-mingw32; 2021-05-12 23:37:18 UTC; windows
Archs: i386, x64
