Package: aquats
Type: Package
Title: Robust Ecological and Fisheries Data Analysis and Visualization
Version: 1.2.2
Authors@R: c(
    person(
      given = "Ataher",
      family = "Ali",
      email = "ataher.cu.ms@gmail.com",
      role = c("aut", "cre"),
      comment = c(ORCID = "0009-0008-8780-0903")
    ),
    person(
      given = c("Mohammed", "Shahidul"),
      family = "Alam",
      email = "alamms@cu.ac.bd",
      role = "aut",
      comment = c(ORCID = "0000-0003-2740-5908")
    )
  )
Description: A comprehensive statistical and visualization toolkit tailored
    for observational data in fisheries science and aquatic ecology. Provides
    streamlined workflows for univariate and factorial analysis of variance
    (ANOVA), analysis of covariance (ANCOVA), multivariate analysis of
    variance (MANOVA), permutational multivariate analysis of variance
    (PERMANOVA), similarity percentages (SIMPER), generalized linear models,
    non-linear morphometric regressions, two-group hypothesis testing, and
    chi-square tests. Features multivariate ordination methods including
    non-metric multidimensional scaling (NMDS), principal component analysis
    (PCA), redundancy analysis (RDA), distance-based redundancy analysis
    (db-RDA), and hierarchical cluster dendrograms. Computes alpha diversity
    metrics, species accumulation curves, water quality index (WQI) values,
    heavy metal ecotoxicological contamination indices, correlation heatmaps,
    and Mantel test network linkages. Offers specialized environmental
    visualizations including Sankey diagrams, Likert plots, circular bar
    charts, and longitudinal time-series with uncertainty ribbons.
    Methodological formulations for multivariate permutation tests follow
    Anderson (2001) <doi:10.1111/j.1442-9993.2001.01070.pp.x>. Ecological
    community dissimilarity transformations follow Legendre and Gallagher
    (2001) <doi:10.1007/s004420100716>, and ecotoxicological contamination
    index models follow Tomlinson et al. (1980) <doi:10.1007/BF02414780>.
License: MIT + file LICENSE
URL: https://github.com/Ataher76/aquats,
        https://doi.org/10.5281/zenodo.22885025
BugReports: https://github.com/Ataher76/aquats/issues
Encoding: UTF-8
LazyData: true
RoxygenNote: 7.3.2
Depends: R (>= 3.5.0)
Imports: dplyr, emmeans, ggplot2, ggpubr, ggrepel, MASS, multcomp,
        RColorBrewer, rlang, tidyr, ggalluvial, vegan
Suggests: cowplot, knitr, multcompView, patchwork, readxl, rmarkdown,
        writexl
VignetteBuilder: knitr
NeedsCompilation: no
Packaged: 2026-10-11 05:34:56 UTC; User
Author: Ataher Ali [aut, cre] (ORCID: <https://orcid.org/0009-0008-8780-0903>),
  Mohammed Shahidul Alam [aut] (ORCID:
    <https://orcid.org/0000-0003-2740-5908>)
Maintainer: Ataher Ali <ataher.cu.ms@gmail.com>
Repository: CRAN
Date/Publication: 2026-10-21 15:00:12 UTC
Built: R 4.6.1; ; 2026-10-21 17:24:19 UTC; unix
