stepwise: Stepwise detection of recombination breakpoints

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A stepwise approach to identifying recombination breakpoints in a sequence alignment.

Author
Jinko Graham <jgraham@stat.sfu.ca>, Brad McNeney <mcneney@sfu.ca>, Francoise Seillier-Moiseiwitsch <seillier@math.umbc.edu>, R interface by Sigal Blay <sblay@sfu.ca>
Date of publication
2012-11-24 08:11:17
Maintainer
Brad McNeney <mcneney@stat.sfu.ca>
License
GPL (>= 2)
Version
0.3
URLs

View on CRAN

Man pages

maxchi
Stepwise detection of recombination breakpoints using MaxChi
phylpro
Stepwise detection of recombination breakpoints using Phylpro
stepwise-internal
Internal stepwise functions
stepwise.seqs
Simulated sequence alignment from the stepwise package
summary.maxchi
Summary of a maxchi object
summary.phylpro
Summary of a phylpro object

Files in this package

stepwise
stepwise/MD5
stepwise/R
stepwise/R/print.pair.R
stepwise/R/phylpro.R
stepwise/R/maxchi.R
stepwise/R/summary.phylpro.R
stepwise/R/summary.maxchi.R
stepwise/DESCRIPTION
stepwise/NAMESPACE
stepwise/src
stepwise/src/init.c
stepwise/src/getMaxChi.c
stepwise/src/stepwise.c
stepwise/src/getMaxChi.h
stepwise/src/Rphylpro.c
stepwise/src/getPhylpro.c
stepwise/src/Rmaxchi.c
stepwise/src/Phylpro.c
stepwise/src/init.h
stepwise/src/MaxChi.c
stepwise/src/getPhylpro.h
stepwise/data
stepwise/data/stepwise.seqs.RData
stepwise/demo
stepwise/demo/00Index
stepwise/demo/phylpro.R
stepwise/demo/maxchi.R
stepwise/inst
stepwise/inst/CITATION
stepwise/inst/doc
stepwise/inst/doc/docu.pdf
stepwise/inst/extdata
stepwise/inst/extdata/stepwise.seqs.R
stepwise/inst/extdata/simulinfile.txt
stepwise/man
stepwise/man/summary.phylpro.Rd
stepwise/man/stepwise.seqs.Rd
stepwise/man/maxchi.Rd
stepwise/man/phylpro.Rd
stepwise/man/stepwise-internal.Rd
stepwise/man/summary.maxchi.Rd