Title: Multivariate Conditional Volatility Modelling and Forecasting
Description: Methods and tools for estimating, simulating and forecasting of so-called BEKK-models (named after Baba, Engle, Kraft and Kroner) based on the fast Berndt–Hall–Hall–Hausman (BHHH) algorithm described in Hafner and Herwartz (2008) <doi:10.1007/s00184-007-0130-y>.
Imports: Rcpp, expm, reshape2, ggplot2, mathjaxr, gridExtra, grid,
ggfortify, parallel, xts, stats, future, forecast, future.apply

Description: Methods and tools for estimating, simulating and forecasting of so-called BEKK-models (named after Baba, Engle, Kraft and Kroner ) based on the fast Berndt–Hall–Hall–Hausman (BHHH) algorithm described in Hafner and Herwartz (2008) <doi:10.1007/s00184-007-0130-y>.

Imports: Rcpp, reshape2, ggplot2, mathjaxr, gridExtra, grid, ggfortify,
parallel, xts, stats, future, forecast, future.apply, GAS, ks,

lubridate, utils, pbapply, numDeriv, moments

Description: Analysis tool for evaluating benthic multimetric indices (BENMMIs).
It generates reproducible reports on the analysis of benthic data, e.g.,
validation and correction of species names, sample pooling, automatic
conversion of genus to species names, outlier detection, benthic
indicator calculation, optimization of single and
multimetric indicators against a pressure gradient, and spatial aggregation
of benthic indicators. One of its use cases was the development of a common
benthic indicator for <https://www.ospar.org> (publication accepted by
Ecological Indicators). See Van Loon et al. (2018) <doi:10.1016/j.ecolind.2017.09.029> for details.
family = "Walvoort", email = "dennis.Walvoort@wur.nl", role = c("aut",
"cre")), person(given = "Willem", family = "van Loon", email =
"willem.van.loon@rws.nl", role = c("aut", "cph")))
Imports: benthos (>= 1.3-5), readr, purrr, knitr, markdown, jsonlite,
xtable, dplyr (>= 0.7.0), tidyr, ggplot2 (>= 2.0.0)

Title: Benthic Ecosystem Quality Index 2
Description: Benthic Ecosystem Quality Index 2. This package facilitates the analysis of benthos data. It estimates several quality indices like the total abundance of species, species richness, Shannon index, AZTI Marine Biotic Index (AMBI), and the BEQI-2 index. The package includes two additional optional features that enhance data preprocessing: (1) genus to species conversion, i.e.,taxa counts at the taxonomic genus level can optionally be converted to the species level and (2) pooling: small samples are combined to bigger samples with a standardized size to (a) meet the data requirements of the AMBI, (b) generate comparable species richness values and (c) give a higher benthos signal to noise ratio.
Authors@R: c(person(given = "Willem", family = "van Loon", email = "willem.van.loon@rws.nl", role = c("aut", "cph")),
person(given = "Dennis", family = "Walvoort", email = "dennis.Walvoort@wur.nl", role = c("aut", "cre")))
Imports: knitr, markdown, RJSONIO, xtable, plyr, reshape2