Reconstruction of Clones from Integration Site Readouts and Visualization

Tools necessary to reconstruct clonal affiliations from temporally and/or spatially separated measurements of viral integration sites. For this means it utilizes correlations present in the relative readouts of the integration sites. Furthermore, facilities for filtering of the data and visualization of different steps in the pipeline are provided with the package.


Reference manual

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0.6.2 by Sebastian Wagner, a month ago

Browse source code at

Authors: Sebastian Wagner [cre, aut] , Christoph Baldow [aut] , Ingmar Glauche [ths]

Documentation:   PDF Manual  

LGPL license

Imports clValid, cluster, clv, dplyr, foreach, ggplot2, igraph, ltm, plyr, poweRlaw, reshape2, RColorBrewer, rlang, rmutil

Suggests knitr, markdown, mclust, testthat, gridExtra

See at CRAN