AbSim: Time Resolved Simulations of Antibody Repertoires

Simulation methods for the evolution of antibody repertoires. The heavy and light chain variable region of both human and C57BL/6 mice can be simulated in a time-dependent fashion. Both single lineages using one set of V-, D-, and J-genes or full repertoires can be simulated. The algorithm begins with an initial V-D-J recombination event, starting the first phylogenetic tree. Upon completion, the main loop of the algorithm begins, with each iteration representing one simulated time step. Various mutation events are possible at each time step, contributing to a diverse final repertoire.

Version: 0.2.2
Depends: R (≥ 3.1.0), ape, poweRlaw
Suggests: knitr, rmarkdown
Published: 2017-06-18
Author: Alexander Yermanos
Maintainer: Alexander Yermanos <ayermano at ethz.ch>
License: GPL-2
NeedsCompilation: no
CRAN checks: AbSim results

Downloads:

Reference manual: AbSim.pdf
Vignettes: AbSim vignette
Package source: AbSim_0.2.2.tar.gz
Windows binaries: r-devel: AbSim_0.2.2.zip, r-release: AbSim_0.2.2.zip, r-oldrel: AbSim_0.2.2.zip
OS X El Capitan binaries: r-release: AbSim_0.2.2.tgz
OS X Mavericks binaries: r-oldrel: AbSim_0.2.2.tgz
Old sources: AbSim archive

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