Pipelines for studying the adaptive immune repertoire of T cells and B cells via network analysis based on receptor sequence similarity. Relate clinical outcomes to immune repertoires based on their network properties, or to particular clusters and clones within a repertoire. Yang et al. (2023) <doi:10.3389/fimmu.2023.1181825>.
| Version: | 1.0.4 |
| Depends: | R (≥ 3.1.0) |
| Imports: | Rcpp (≥ 1.0.8), lifecycle, igraph, ggraph, ggplot2, grDevices, utils, Matrix, stats, dplyr, rlang |
| LinkingTo: | Rcpp, RcppArmadillo (≥ 0.10.8.0.0) |
| Suggests: | knitr, rmarkdown, testthat (≥ 3.0.0) |
| Published: | 2024-03-03 |
| DOI: | 10.32614/CRAN.package.NAIR |
| Author: | Brian Neal [aut, cre], Hai Yang [aut], Daniil Matveev [aut], Phi Long Le [aut], Li Zhang [cph, aut] |
| Maintainer: | Brian Neal <Brian.Neal at ucsf.edu> |
| License: | GPL (≥ 3) |
| URL: | https://mlizhangx.github.io/Network-Analysis-for-Repertoire-Sequencing-/, https://github.com/mlizhangx/Network-Analysis-for-Repertoire-Sequencing- |
| NeedsCompilation: | yes |
| Materials: | README, NEWS |
| CRAN checks: | NAIR results |
| Reference manual: | NAIR.html , NAIR.pdf |
| Vignettes: |
Introduction to the NAIR package (source, R code) buildRepSeqNetwork()/buildNet() (source, R code) Cluster Analysis (source, R code) Dual-Chain Network Analysis (source, R code) Node-Level Network Properties (source, R code) Supplementary Functions (source, R code) |
| Package source: | NAIR_1.0.4.tar.gz |
| Windows binaries: | r-devel: NAIR_1.0.4.zip, r-release: NAIR_1.0.4.zip, r-oldrel: NAIR_1.0.4.zip |
| macOS binaries: | r-release (arm64): NAIR_1.0.4.tgz, r-oldrel (arm64): NAIR_1.0.4.tgz, r-release (x86_64): NAIR_1.0.4.tgz, r-oldrel (x86_64): NAIR_1.0.4.tgz |
| Old sources: | NAIR archive |
Please use the canonical form https://CRAN.R-project.org/package=NAIR to link to this page.