Nematode Community Analysis

Provides a built-in Nemaplex database for nematodes, which can be used to search for various nematodes. Also supports various nematode community and functional analyses such as nematode diversity, maturity index, metabolic footprint, and functional guild. The methods are based on < https://shiny.wur.nl/ninja/>, Bongers, T. (1990) , Ferris, H. (2010) , Wan, B. et al. (2022) , and Van Den Hoogen, J. et al. (2019) .

easynem

This R package has a built-in Nemaplex database for nematodes, which can be used to search for various nematodes. At the same time, this R package supports various nematode communities and functional analyses such as nematode diversity, maturity index, metabolic footprint, and functional guild.

Installation

You can install the development version of easynem from GitHub with:

# install.packages("devtools")
devtools::install_github("whkygl/easynem")

Example

This is a basic example which shows you how to solve a common problem:

library(easynem)
## basic example code

Calculation of metabolic footprint of nematode communities:

nem <- read_nem2(tab = nemtab, tax = nemtax, meta = nemmeta)
nem_plot <- nem |>
            calc_nemindex() |>
            calc_mf(Treatments) |>
            nem_plot(kei = 30, ksi = 20)
nem_plot

Calculation of energy structure of nematode communities:

nem_plot <- nem |>
            calc_nemindex() |>
            calc_ef(Treatments) |>
            nem_plot()
nem_plot