jrich: Jack-Knife Support for Evolutionary Distinctiveness Indices I and W

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These functions calculate the taxonomic measures presented in Miranda-Esquivel (2016). The package introduces Jack-knife resampling in evolutionary distinctiveness prioritization analysis, as a way to evaluate the support of the ranking in area prioritization, and the persistence of a given area in a conservation analysis. The algorithm is described in: Miranda-Esquivel, D (2016) <DOI:10.1007/978-3-319-22461-9_11>.

Author
Daniel R. Miranda-Esquivel
Date of publication
2016-03-06 17:50:38
Maintainer
Daniel R. Miranda-Esquivel <dmiranda@uis.edu.co>
License
GPL-3
Version
0.60-35
URLs

View on CRAN

Man pages

Best.Index
Jack-knife indices in a single topology m times and evaluates...
Calculate.Index
Indices values and Jack-knife indices for a single topology.
Children
Children of a node.
distribution
Distribution of five taxa.
IndexI
I index value for a single topology.
IndexW
W index value for a single topology.
Multi.Index.Calc
Jack-knife indices in n topologies one time.
Multi.Jack
Jack-knife indices in n topologies m times.
Multitaxon1
Multitaxon example.
Rank.Indices
Rank indices.
Read.Data
Read distributions.
Sum.Indices.2.Topologies
Sums two tables with indices values.
taxon1
A tree and the distribution of the taxa.
tree
A tree with five terminals.

Files in this package

jrich
jrich/inst
jrich/inst/exdata
jrich/inst/exdata/Janus.tre
jrich/inst/exdata/puranius.tre
jrich/inst/exdata/puranius.csv.gz
jrich/inst/exdata/Janus.csv.gz
jrich/inst/CITATION
jrich/inst/doc
jrich/inst/doc/jrich-workedExample.pdf
jrich/inst/doc/jrich-workedExample.Rmd
jrich/inst/doc/jrich-workedExample.html
jrich/NAMESPACE
jrich/data
jrich/data/Multitaxon1.rda
jrich/data/tree.rda
jrich/data/taxon1.rda
jrich/data/distribution.rda
jrich/R
jrich/R/Best.Index.R
jrich/R/IndexI.R
jrich/R/taxon1.R
jrich/R/IndexW.R
jrich/R/Calculate.Index.R
jrich/R/Multi.Index.Calc.R
jrich/R/Rank.Indices.R
jrich/R/Multi.Jack.R
jrich/R/Read.data.R
jrich/R/Multitaxon1.R
jrich/R/Children.R
jrich/R/distribution.R
jrich/R/tree.R
jrich/R/Sum.indices.2.topologies.R
jrich/MD5
jrich/DESCRIPTION
jrich/man
jrich/man/Best.Index.Rd
jrich/man/Multi.Index.Calc.Rd
jrich/man/Read.Data.Rd
jrich/man/IndexW.Rd
jrich/man/Calculate.Index.Rd
jrich/man/Children.Rd
jrich/man/Multi.Jack.Rd
jrich/man/IndexI.Rd
jrich/man/Sum.Indices.2.Topologies.Rd
jrich/man/distribution.Rd
jrich/man/Multitaxon1.Rd
jrich/man/taxon1.Rd
jrich/man/Rank.Indices.Rd
jrich/man/tree.Rd