Package: ambiR
Type: Package
Title: Calculate AZTI’s Marine Biotic Index
Version: 0.1.1
Authors@R: c( 
    person("Ciarán J.", "Murray", ,"cjm@niva-dk.dk", role = c("aut", "cre", "cph"),
    comment = c(ORCID = "0000-0003-0260-2008")),
    person("Ángel", "Borja", ,"aborja@azti.es", role = "aut",
    comment = c(ORCID = "0000-0003-1601-2025")),
    person("Sarai", "Pouso", ,"spouso@azti.es", role = "aut",
    comment = c(ORCID = "0000-0003-3208-9882")),
    person("Iñigo", "Muxika", ,"imuxika@azti.es", role = "aut",
    comment = c(ORCID = "0000-0002-9181-3781")),
    person("Joxe Mikel", "Garmendia", ,"jgarmendia@azti.es", role = "aut",
    comment = c(ORCID = "0000-0002-9403-1777")),
    person("Steen", "Knudsen", ,"steen.knudsen@niva-dk.dk", role = "ctb",
    comment = c(ORCID = "0000-0003-0428-9940")),
    person("GES4SEAS", role = "fnd", comment = c("Grant Agreement 101059877 - GES4SEAS.
      The GES4SEAS project has been approved under the HORIZON-CL6-2021-BIODIV-01-04 call:
      'Assess and predict integrated impacts of cumulative direct and indirect stressors 
      on coastal and marine biodiversity, ecosystems and their services'. 
      Funded by the European Union. Views and opinions expressed are however 
      those of the authors only and do not necessarily reflect those of the 
      European Union or UK Research and Innovation. Neither the European Union 
      nor the granting authority can be held responsible for them."))
    )
Maintainer: Ciarán J. Murray <cjm@niva-dk.dk>
Description: Calculate AZTI’s Marine Biotic Index - AMBI. The included
        list of benthic fauna species according to their sensitivity to
        pollution. Matching species in sample data to the list allows
        the calculation of fractions of individuals in the different
        sensitivity categories and thereafter the AMBI index. The
        Shannon Diversity Index H' and the Danish benthic fauna quality
        index DKI (Dansk Kvalitetsindeks) can also be calculated, as
        well as the multivariate M-AMBI index. Borja, A., Franco, J.,
        Pérez, V. (2000) "A marine biotic index to establish the
        ecological quality of soft bottom benthos within European
        estuarine and coastal environments"
        <doi:10.1016/S0025-326X(00)00061-8>.
License: MIT + file LICENSE
Encoding: UTF-8
LazyData: true
Suggests: spelling, testthat (>= 3.0.0), usethis, devtools, knitr,
        rmarkdown, ggplot2, scales
Config/testthat/edition: 3
RoxygenNote: 7.3.3
Depends: R (>= 3.5)
Imports: dplyr, tidyr, cli, magrittr, utils, stats
Roxygen: list(markdown = TRUE)
URL: https://niva-denmark.github.io/ambiR/,
        https://github.com/niva-denmark/ambiR/,
        https://github.com/NIVA-Denmark/ambiR
BugReports: https://github.com/NIVA-Denmark/ambiR/issues
Config/Needs/website: rmarkdown
VignetteBuilder: knitr
Language: en-GB
Repository: https://niva-denmark.r-universe.dev
Date/Publication: 2025-12-20 11:54:28 UTC
RemoteUrl: https://github.com/niva-denmark/ambir
RemoteRef: HEAD
RemoteSha: 4e75b9ce5143fd8ea8b0108d9eba206b75ce0a95
NeedsCompilation: no
Packaged: 2026-06-18 08:54:59 UTC; root
Author: Ciarán J. Murray [aut, cre, cph] (ORCID:
    <https://orcid.org/0000-0003-0260-2008>),
  Ángel Borja [aut] (ORCID: <https://orcid.org/0000-0003-1601-2025>),
  Sarai Pouso [aut] (ORCID: <https://orcid.org/0000-0003-3208-9882>),
  Iñigo Muxika [aut] (ORCID: <https://orcid.org/0000-0002-9181-3781>),
  Joxe Mikel Garmendia [aut] (ORCID:
    <https://orcid.org/0000-0002-9403-1777>),
  Steen Knudsen [ctb] (ORCID: <https://orcid.org/0000-0003-0428-9940>),
  GES4SEAS [fnd] (Grant Agreement 101059877 - GES4SEAS.  The GES4SEAS
    project has been approved under the HORIZON-CL6-2021-BIODIV-01-04
    call: 'Assess and predict integrated impacts of cumulative direct
    and indirect stressors on coastal and marine biodiversity,
    ecosystems and their services'.  Funded by the European Union.
    Views and opinions expressed are however those of the authors only
    and do not necessarily reflect those of the European Union or UK
    Research and Innovation. Neither the European Union nor the
    granting authority can be held responsible for them.)