Package: scoper 1.3.1.999

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

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>.

Authors:Nima Nouri [aut], Edel Aron [ctb], Gisela Gabernet [ctb], Susanna Marquez [ctb, cre], Jason Vander Heiden [aut], Steven Kleinstein [aut, cph]

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scoper/json (API)
NEWS

# Install 'scoper' in R:

install.packages('scoper', repos = c('https://ssnn-airr.r-universe.dev', 'https://cloud.r-project.org'))

Bug tracker:https://bitbucket.org/kleinstein/scoper

Uses libs:

c++– GNU Standard C++ Library v3

Datasets:

On CRAN:

8 exports 1.20 score 104 dependencies 69 scripts 447 downloads

Last updated 1 months agofrom:7446db4269. Checks:OK: 1 WARNING: 8. Indexed: yes.

Target	Result	Date
Doc / Vignettes	OK	Sep 11 2024
R-4.5-win-x86_64	WARNING	Sep 11 2024
R-4.5-linux-x86_64	WARNING	Sep 11 2024
R-4.4-win-x86_64	WARNING	Sep 11 2024
R-4.4-mac-x86_64	WARNING	Sep 11 2024
R-4.4-mac-aarch64	WARNING	Sep 11 2024
R-4.3-win-x86_64	WARNING	Sep 11 2024
R-4.3-mac-x86_64	WARNING	Sep 11 2024
R-4.3-mac-aarch64	WARNING	Sep 11 2024