divo: Tools for Analysis of Diversity and Similarity in Biological Systems
Version 0.1.2

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.

Browse man pages Browse package API and functions Browse package files

AuthorMaciej Pietrzak, Michal Seweryn, Grzegorz Rempala
Date of publication2016-01-07 23:59:01
MaintainerMaciej Pietrzak <pietrzak.20@osu.edu>
LicenseGPL (>= 2)
Version0.1.2
Package repositoryView on CRAN
InstallationInstall the latest version of this package by entering the following in R:
install.packages("divo")

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

Functions

DP.pooled.profile Source code
DP.single.profile Source code
TCR.Data Man page
WriteTest Source code
cvg Man page Source code
divo Man page
divo System Requirements Man page
dp Man page Source code
dp.ht Man page Source code
e.clust Source code
ens Man page Source code
ens.ht Man page Source code
i.in Man page Source code
i.inp Man page Source code
ji Man page Source code
li Man page Source code
mh Man page Source code
p.clust Source code
pg Man page Source code
pg.ht Man page Source code
rd Man page Source code
srd Man page Source code
x Man page

Files

inst
inst/DivO_Overlap.py
inst/DivO_DP.py
inst/DivO_EnvCheck.py
inst/doc
inst/doc/divo-Vignette.R
inst/doc/divo-Vignette.Rnw
inst/doc/divo-Manual.pdf
inst/doc/divo-Manual.Rnw
inst/doc/divo-Vignette.pdf
NAMESPACE
data
data/TCR.Data.rda
R
R/divo.R
vignettes
vignettes/divo-Vignette.Rnw
vignettes/divo-Manual.Rnw
MD5
build
build/vignette.rds
DESCRIPTION
man
man/cvg.Rd
man/x.Rd
man/mh.Rd
man/pg.ht.Rd
man/li.Rd
man/divo.Rd
man/pg.Rd
man/i.inp.Rd
man/SystemRequirements.Rd
man/dp.ht.Rd
man/ji.Rd
man/ens.Rd
man/ens.ht.Rd
man/rd.Rd
man/dp.Rd
man/srd.Rd
man/i.in.Rd
man/TCR.Data.Rd
divo documentation built on May 20, 2017, 3:15 a.m.