sads: Maximum Likelihood Models for Species Abundance Distributions

Maximum likelihood tools to fit and compare models of species abundance distributions and of species rank-abundance distributions.

AuthorPaulo I. Prado, Murilo Dantas Miranda and Andre Chalom
Date of publication2016-05-13 00:47:12
MaintainerPaulo I. Prado <prado@ib.usp.br>
LicenseGPL-2
Version0.3.1
http://piLaboratory.github.io/sads, https://github.com/piklprado/sads

View on CRAN

Man pages

ARN82: Biomass of marine animals in colonizing experiments in Baltic...

bci: Tree species abundance in Barro Colorado Island Plot

birds: Abundances of breeding birds in Quacker Run Valley, NY

dbs: MacArthur's Broken-stick distribution

dgs: Geometric series distribution

distr: Continuous or discrete distributions

dls: Fisher's Log-series distribution

dman: Zipf-Mandelbrodt distribution

dmzsm: Metacommunity zero-sum multinomial distribution

dpareto: Pareto distribution

dpoig: Compound Poisson-gamma distribution

dpoilog: Poisson-lognormal distribution

dpoix: Compound Poisson-Exponential distribution

dpowbend: Puyeo's Power-bend discrete distribution

dpower: Power discrete distribution

dtrunc: Left-truncation of density, probability and quantile of...

dvolkov: Neutral Biodiversity Theory distribution by Volkov _et al._

dzipf: Zipf distribution

fitrad: ML fitting of species rank-abundance distributions

fitrad-class: Class '"fitrad"' for maximum likelihood fitting of species...

fitsad: ML fitting of species abundance distributions

fitsad-class: Class '"fitsad"' for maximum likelihood fitting of species...

ICtab: Compute table of information criteria and auxiliary info

likelregions-class: Class '"likelregions"' for likelihood profiles of maximum...

moths: Moths caught with light traps at Rothamsted 1933-1936

octav: Frequencies of species in octaves

octav-class: Class '"octav"' for frequencies in abundance octaves

octavpred: Predicted frequencies of species in octaves

okland: Abundances of land snail species in Norway

plotprofmle: Log-likelihood profiles at original scale

ppsad: Percentile-percentile plots for species-abundance and...

pred.logser: Predicted number of species by Fisher's Logseries

qqsad: Quantile-quantile plots for species-abundance and...

rad: Rank-abundance data frame

rad-class: Class '"rad"' for rank-abundance data

radpred: Predicted ranked abundance of species

rsad: Sampling from a species abundance distribution

sads-package: Modeling Species Abundance Distributions

stats: Standard stats methods

summary.sads-class: Summary for fitsad/fitrad calls

updatesad: Updating of MLE fits by profiling

Files in this package

sads
sads/inst
sads/inst/doc
sads/inst/doc/sads_intro.Rnw
sads/inst/doc/sads_intro.pdf
sads/inst/doc/sads_intro.R
sads/src
sads/src/gauss_legendre.h
sads/src/volkov.c
sads/src/gauss_legendre.c
sads/NAMESPACE
sads/NEWS
sads/data
sads/data/birds.rda
sads/data/okland.rda
sads/data/ARN82.eB.apr77.rda
sads/data/bci.rda
sads/data/moths.rda
sads/R
sads/R/dpoig.R sads/R/dpoix.R sads/R/qmzsm.R sads/R/qrbs.R sads/R/fitpareto.R sads/R/fitzipf.R sads/R/utils.R sads/R/fitbs.R sads/R/fitpoilog.R sads/R/pred.logser.R sads/R/dls.R sads/R/prbs.R sads/R/updatesad.R sads/R/pls.R sads/R/qmand.R sads/R/rad.R sads/R/dpower.R sads/R/dvolkov.R sads/R/qpoig.R sads/R/plotprofmle.R sads/R/ppower.R sads/R/dzipf.R sads/R/fitrad.R sads/R/fitvolkov.R sads/R/pmand.R sads/R/qpowbend.R sads/R/ppoilog.R sads/R/qpoix.R sads/R/dpowbend.R sads/R/rsad.R sads/R/qgs.R sads/R/qtrunc.R sads/R/fitmzsm.R sads/R/dpareto.R sads/R/sads-methods.R sads/R/dmzsm.R sads/R/fitgeom.R sads/R/pbs.R sads/R/qpower.R sads/R/dpoilog.R sads/R/pvolkov.R sads/R/ppareto.R sads/R/pzipf.R sads/R/pmzsm.R sads/R/sads-classes.R sads/R/fitpowbend.R sads/R/fitlnorm.R sads/R/fitmand.R sads/R/fitls.R sads/R/ppoix.R sads/R/fitpower.R sads/R/ppowbend.R sads/R/pgs.R sads/R/fitrbs.R sads/R/dgs.R sads/R/qvolkov.R sads/R/qpoilog.R sads/R/fitnbinom.R sads/R/ppoig.R sads/R/fitsad.R sads/R/distr.R sads/R/dtrunc.R sads/R/fitweibull.R sads/R/qbs.R sads/R/drbs.R sads/R/qls.R sads/R/ptrunc.R sads/R/fitgs.R sads/R/qpareto.R sads/R/dmand.R sads/R/qzipf.R sads/R/fitgamma.R sads/R/dbs.R
sads/vignettes
sads/vignettes/sads_intro.Rnw
sads/vignettes/ecology.bst
sads/vignettes/sads_intro.bib
sads/README.md
sads/MD5
sads/build
sads/build/vignette.rds
sads/DESCRIPTION
sads/man
sads/man/dvolkov.Rd sads/man/summary.sads-class.Rd sads/man/ppsad.Rd sads/man/octavpred.Rd sads/man/dpareto.Rd sads/man/dgs.Rd sads/man/plotprofmle.Rd sads/man/octav.Rd sads/man/dpoix.Rd sads/man/updatesad.Rd sads/man/dmzsm.Rd sads/man/dman.Rd sads/man/moths.Rd sads/man/distr.Rd sads/man/dtrunc.Rd sads/man/ICtab.Rd sads/man/dbs.Rd sads/man/dpower.Rd sads/man/ARN82.Rd sads/man/bci.Rd sads/man/fitrad.Rd sads/man/pred.logser.Rd sads/man/fitsad.Rd sads/man/dzipf.Rd sads/man/rad-class.Rd sads/man/fitrad-class.Rd sads/man/stats.Rd sads/man/birds.Rd sads/man/octav-class.Rd sads/man/okland.Rd sads/man/dpoig.Rd sads/man/sads-package.Rd sads/man/qqsad.Rd sads/man/rsad.Rd sads/man/radpred.Rd sads/man/dpowbend.Rd sads/man/dls.Rd sads/man/dpoilog.Rd sads/man/fitsad-class.Rd sads/man/likelregions-class.Rd sads/man/rad.Rd

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