DivE: Diversity Estimator

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R-package DivE contains functions for the DivE estimator (Laydon, D. et al., Quantification of HTLV-1 clonality and TCR diversity, PLOS Comput. Biol. 2014). The DivE estimator is a heuristic approach to estimate the number of classes or the number of species (species richness) in a population.

Author
Daniel Laydon, Aaron Sim, Charles Bangham, Becca Asquith
Date of publication
2014-04-14 19:07:04
Maintainer
Daniel Laydon <d.laydon@imperial.ac.uk>
License
GPL (>= 2)
Version
1.0

View on CRAN

Man pages

Bact1
Count of Medically Important Bacteria Species in a Sample
comb.dm
comb.dm
Curvature
Curvature
DivE-internal
Internal functions
DiveMaster
DiveMaster
DivE-package
Diversity Estimator
divsamplenum
divsamplenum
divsubsamples
divsubsamples
fitsinglemod
fitsinglemod
ModelSet
List of 58 candidate models to fit to data
ParamRanges
List of 58 sets of upper and lower bounds for models...
ParamSeeds
List of 58 matrices of model seeding parameters.
popdiversity
popdiversity
scoresinglemod
scoresinglemod

Files in this package

DivE
DivE/NAMESPACE
DivE/demo
DivE/demo/00Index
DivE/demo/Example_Script.R
DivE/data
DivE/data/ModelSet.rda
DivE/data/Bact1.RData
DivE/data/ParamRanges.rda
DivE/data/ParamSeeds.rda
DivE/data/datalist
DivE/R
DivE/R/DivE.R
DivE/MD5
DivE/DESCRIPTION
DivE/man
DivE/man/scoresinglemod.Rd
DivE/man/comb.dm.Rd
DivE/man/DiveMaster.Rd
DivE/man/ParamRanges.Rd
DivE/man/Bact1.Rd
DivE/man/Curvature.Rd
DivE/man/ModelSet.Rd
DivE/man/popdiversity.Rd
DivE/man/fitsinglemod.Rd
DivE/man/divsamplenum.Rd
DivE/man/divsubsamples.Rd
DivE/man/DivE-package.Rd
DivE/man/ParamSeeds.Rd
DivE/man/DivE-internal.Rd