divo: Tools for Analysis of Diversity and Similarity in Biological Systems

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A set of tools for empirical analysis of diversity (a number and frequency of different types in population) and similarity (a number and frequency of shared types in two populations) in biological or ecological systems.

Author
Maciej Pietrzak, Michal Seweryn, Grzegorz Rempala
Date of publication
2016-01-07 23:59:01
Maintainer
Maciej Pietrzak <pietrzak.20@osu.edu>
License
GPL (>= 2)
Version
0.1.2

View on CRAN

Man pages

cvg
cvg Coverage
divo
Tools for Analysis of Diversity and Similarity in Biological...
dp
dp Diversity Profile
dp.ht
dp.ht Diversity Profile with the Horvitz-Thompson Adjustment
ens
ens Effective Number of Species
ens.ht
ens.ht Effective Number of Species with the Horvitz-Thompson...
i.in
i.in Information Index (I index) for 2-Way Table
i.inp
i.inp Information Index (I index) for 2-Way, 2 Column Table
ji
ji Jaccard Index
li
li Sorensen Index
mh
mh Morisita-Horn Index
pg
pg Power-Geometric Index
pg.ht
pg.ht Power-Geometric Index with the Horvitz-Thompson...
rd
rd Renyi's Divergence
srd
srd Symmetrized Renyi's Divergence
SystemRequirements
System Requirements
TCR.Data
TCR.Data Repertoires of Naive and Regulatory T-cell...
x
Example dataset for divo package

Files in this package

divo
divo/inst
divo/inst/DivO_Overlap.py
divo/inst/DivO_DP.py
divo/inst/DivO_EnvCheck.py
divo/inst/doc
divo/inst/doc/divo-Vignette.R
divo/inst/doc/divo-Vignette.Rnw
divo/inst/doc/divo-Manual.pdf
divo/inst/doc/divo-Manual.Rnw
divo/inst/doc/divo-Vignette.pdf
divo/NAMESPACE
divo/data
divo/data/TCR.Data.rda
divo/R
divo/R/divo.R
divo/vignettes
divo/vignettes/divo-Vignette.Rnw
divo/vignettes/divo-Manual.Rnw
divo/MD5
divo/build
divo/build/vignette.rds
divo/DESCRIPTION
divo/man
divo/man/cvg.Rd
divo/man/x.Rd
divo/man/mh.Rd
divo/man/pg.ht.Rd
divo/man/li.Rd
divo/man/divo.Rd
divo/man/pg.Rd
divo/man/i.inp.Rd
divo/man/SystemRequirements.Rd
divo/man/dp.ht.Rd
divo/man/ji.Rd
divo/man/ens.Rd
divo/man/ens.ht.Rd
divo/man/rd.Rd
divo/man/dp.Rd
divo/man/srd.Rd
divo/man/i.in.Rd
divo/man/TCR.Data.Rd