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Simulate full B-cell and T-cell receptor repertoires using an in silico recombination process that includes a wide variety of tunable parameters to introduce noise and biases. Additional post-simulation modification functions allow the user to implant motifs or codon biases as well as remodeling sequence similarity architecture. The output repertoires contain records of all relevant repertoire dimensions and can be analyzed using provided repertoire analysis functions. Preprint is available at bioRxiv (Weber et al., 2019 <doi:10.1101/759795>).
| Version: | 0.8.7 |
| Depends: | R (≥ 3.4.0) |
| Imports: | poweRlaw, stringdist, Biostrings, igraph, stringr, data.table, plyr, reshape2, ggplot2, grid, ggthemes, RColorBrewer, Metrics, repmis |
| Published: | 2019-09-27 |
| DOI: | 10.32614/CRAN.package.immuneSIM |
| Author: | Cédric R. Weber [aut, cre], Victor Greiff [aut] |
| Maintainer: | Cédric R. Weber <cedric.weber at bsse.ethz.ch> |
| BugReports: | https://github.com/GreiffLab/immuneSIM/issues |
| License: | GPL-3 |
| URL: | https://immuneSIM.readthedocs.io |
| NeedsCompilation: | no |
| CRAN checks: | immuneSIM results |
| Reference manual: | immuneSIM.pdf |
| Package source: | immuneSIM_0.8.7.tar.gz |
| Windows binaries: | r-devel: immuneSIM_0.8.7.zip, r-release: immuneSIM_0.8.7.zip, r-oldrel: immuneSIM_0.8.7.zip |
| macOS binaries: | r-release (arm64): immuneSIM_0.8.7.tgz, r-oldrel (arm64): immuneSIM_0.8.7.tgz, r-release (x86_64): immuneSIM_0.8.7.tgz, r-oldrel (x86_64): immuneSIM_0.8.7.tgz |
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