HMSC: Hierarchical modelling of species community

This package is design to analyse species community using hierarchical models. The package is based on the work of Ovaskainen and Soininen (2011) and generalize some aspect of the developments made within what was proposed in the paper. The package can perform linear as well as non-linear regression analysis. ** Future: It is meant to include models where species traits and phylogeny can also be considered.

Author
F. Guillaume Blanchet
Date of publication
2014-07-17 14:02:20
Maintainer
F. Guillaume Blanchet <guillaume.blanchet@helsinki.fi>
License
GPL (>=2)
Version
0.6-2

View on R-Forge

Man pages

as.HMSC
Convert data, parameters, and priors to "HMSC" classes
basicStatHMSC
Summary statistics of the model probabilities on an object of...
communitySimul
Simulate a species community
erf
Error functions
hmsc
Hierarchical modelling of species community
HMSC-package
Hierarchical modelling of species community
ilogit
Inverse link functions
loglikelihood
Log-likelihood of a regression model
mixing
Mixing plot
scam
Single Component Adaptative Metropolis (SCAM) algorithm with...

Files in this package

HMSC/DESCRIPTION
HMSC/NAMESPACE
HMSC/R
HMSC/R/as.HMSCdata.R
HMSC/R/as.HMSCparam.R
HMSC/R/as.HMSCprior.R
HMSC/R/basicStatHMSC.R
HMSC/R/communitySimulH.R
HMSC/R/communitySimulH.default.R
HMSC/R/communitySimulH.formula.R
HMSC/R/communitySimulHT.R
HMSC/R/communitySimulHT.default.R
HMSC/R/erf.R
HMSC/R/erfc.R
HMSC/R/hmscH.HMSCdata.R
HMSC/R/hmscH.R
HMSC/R/hmscH.formula.R
HMSC/R/hmscHT.HMSCdata.R
HMSC/R/hmscHT.R
HMSC/R/ilog.R
HMSC/R/ilogit.R
HMSC/R/inverf.R
HMSC/R/inverfc.R
HMSC/R/loglikelihood.R
HMSC/R/loglikelihood.default.R
HMSC/R/loglikelihood.formula.R
HMSC/R/loglikelihood.matrix.R
HMSC/R/mixing.R
HMSC/R/parseformula.R
HMSC/R/plot.communitySimul.R
HMSC/R/probit2link.R
HMSC/R/quantile.hmsc.R
HMSC/R/scamH.HMSCdata.R
HMSC/R/scamH.R
HMSC/R/scamH.formula.R
HMSC/R/scamHT.HMSCdata.R
HMSC/R/scamHT.R
HMSC/R/scamRandom.HMSCdata.R
HMSC/R/scamRandom.R
HMSC/R/summary.hmsc.R
HMSC/man
HMSC/man/HMSC-package.Rd
HMSC/man/as.HMSC.Rd
HMSC/man/basicStatHMSC.Rd
HMSC/man/communitySimul.Rd
HMSC/man/erf.Rd
HMSC/man/hmsc.Rd
HMSC/man/ilogit.Rd
HMSC/man/loglikelihood.Rd
HMSC/man/mixing.Rd
HMSC/man/scam.Rd