shazam (0.2.1)

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Immunoglobulin Somatic Hypermutation Analysis.

http://shazam.readthedocs.io
http://cran.r-project.org/web/packages/shazam

Provides a computational framework for analyzing mutations in immunoglobulin (Ig) sequences. Includes methods for Bayesian estimation of antigen-driven selection pressure, mutational load quantification, building of somatic hypermutation (SHM) models, and model-dependent distance calculations. Also includes empirically derived models of SHM for both mice and humans. Citations: Gupta and Vander Heiden, et al (2015) , Yaari, et al (2012) , Yaari, et al (2013) , Cui, et al (2016) .

Maintainer: Jason Vander Heiden
Author(s): Mohamed Uduman [aut], Gur Yaari [aut], Namita Gupta [aut], Jason Vander Heiden [aut, cre], Ang Cui [ctb], Susanna Marquez [ctb], Julian Zhou [ctb], Nima Nouri [ctb], Steven Kleinstein [aut, cph]

License: CC BY-SA 4.0

Uses: alakazam, ape, diptest, doParallel, dplyr, foreach, ggplot2, igraph, iterators, kedd, KernSmooth, lazyeval, MASS, progress, rlang, scales, SDMTools, seqinr, stringi, tidyr, testthat, knitr, rmarkdown
Reverse depends: tigger

Released 29 days ago.


11 previous versions

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