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ssd4mosaic (version 1.0.3)

Web Application for the SSD Module of the MOSAIC Platform

Description

Web application using 'shiny' for the SSD (Species Sensitivity Distribution) module of the MOSAIC (MOdeling and StAtistical tools for ecotoxICology) platform. It estimates the Hazardous Concentration for x% of the species (HCx) from toxicity values that can be censored and provides various plotting options for a better understanding of the results. See our companion paper Kon Kam King et al. (2014) .

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Version

Install

install.packages('ssd4mosaic')

Monthly Downloads

479

Version

1.0.3

License

MIT + file LICENSE

Homepage

https://gitlab.in2p3.fr/mosaic-software/mosaic-ssd

Maintainer

Aurélie Siberchicot

Last Published

March 11th, 2025

Functions in ssd4mosaic (1.0.3)

Fit the specified distributions to the given data

Create a label for x axis based on concentration unit and log scale

Get HCx values for a given x from a bootstrap

group_cdf_censored

Graphical representation of grouped toxicity censored data

order_cens_data

Take a data.frame of censored toxicity data and order them like fitdistrplus plots

Graphical representation of toxicity data with additional elements

name_plot_censored

Graphical representation of named toxicity censored data

name_plot_uncensored

Graphical representation of named toxicity uncensored data

cens_lines_plot

Graphical representation of censored data

Generate bootstrap sample(s) for a list of fit(s) and check their convergence

get_parameters_html

Get fit(s) parameters in HTML format for shiny outputs

Custom toggle switch input for shiny UI

salinity_family

72-hour acute salinity tolerance of macro-invertebrates grouped by family.

Test the approximate equality of the quantiles from several bootstrap samples

group_cdf_uncensored

Graphical representation of grouped toxicity uncensored data

72-hour acute salinity tolerance of macro-invertebrates grouped by order.

Create a pretty confidence interval ggplot

Objects exported from other packages

Run the Shiny Application

48-hour acute toxicity values for fluazinam

Determines the appropriate bootstrap function based on a fit object

Graphical representation of fitted distribution(s)

Add confidence interval(s) to an existing fitted distribution ggplot

Get HCx values from fit or bootstrap

Generate a script according to user in-app inputs

Custom ggplot theme created for MOSAIC bioacc overwriting theme_bw

Summary of 48 to 96-hour acute toxicity values for endosulfan

combine_boot_samples

Combine several bootstrap samples into a single bootdist or bootdistcens object