alakazam: Immunoglobulin Clonal Lineage and Diversity Analysis

Provides immunoglobulin (Ig) sequence lineage reconstruction, diversity profiling, and amino acid property analysis. Citations: Gupta and Vander Heiden, et al (2017) <doi:10.1093/bioinformatics/btv359>, Stern, Yaari and Vander Heiden, et al (2014) <doi:10.1126/scitranslmed.3008879>.

Version: 0.2.10
Depends: R (≥ 3.1.2), ggplot2 (≥ 2.0.0)
Imports: dplyr (≥ 0.5.0), graphics, grid, igraph (≥ 1.0.0), lazyeval, methods, progress, Rcpp (≥ 0.12.12), readr, scales, seqinr, stats, stringi, utils
LinkingTo: Rcpp
Suggests: knitr, rmarkdown, testthat
Published: 2018-03-30
Author: Jason Vander Heiden [aut, cre], Namita Gupta [aut], Susanna Marquez [ctb], Daniel Gadala-Maria [ctb], Rouyi Jiang [ctb], Nima Nouri [ctb], Steven Kleinstein [aut, cph]
Maintainer: Jason Vander Heiden <jason.vanderheiden at yale.edu>
BugReports: https://bitbucket.org/kleinstein/alakazam/issues
License: CC BY-SA 4.0
URL: http://alakazam.readthedocs.org
NeedsCompilation: yes
SystemRequirements: C++11
Citation: alakazam citation info
Materials: README NEWS
CRAN checks: alakazam results

Downloads:

Reference manual: alakazam.pdf
Vignettes: Amino acid property analysis
Diversity analysis
Gene usage analysis
Lineage reconstruction
Topology analysis
Package source: alakazam_0.2.10.tar.gz
Windows binaries: r-devel: alakazam_0.2.10.zip, r-release: alakazam_0.2.10.zip, r-oldrel: alakazam_0.2.10.zip
OS X binaries: r-release: alakazam_0.2.10.tgz, r-oldrel: alakazam_0.2.10.tgz
Old sources: alakazam archive

Reverse dependencies:

Reverse imports: shazam, tigger

Linking:

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