index.Rmd

---
title: "bootstrapnet - R package to bootstrap indices of ecological networks"
author: "by [Valentin Stefan](https://github.com/valentinitnelav) - last update `r format(Sys.time(), '%d %B %Y')`"
---

# Overview

R package for resampling network metrics/indices (bootstrapping without replacement).

It wraps around the [bipartite][bip] package functions `networklevel` and `specieslevel`. 

Assuming a network/web like `Safariland` from the bipartite package:

``` r
library(bipartite)
data(Safariland)
```
One can sample interactions without replacement from the network until all interactions have been used. The sampling procedure starts with a small sample size to which interactions are added until all are consumed. Every time we sample interactions, a smaller version of the entire network can be built and a network index/metric can be computed. The sampling procedure can be repeated as many times as needed, giving the possibility to compute mean values with quantile-based confidence intervals. The mean values across sample sizes can be plotted and indices of different networks can be visually compared. See examples below.

[bip]: https://cran.r-project.org/web/packages/bipartite/index.html

Below is an animation of the sampling method (one iteration). A detailed explanation of the method can be found [here](https://valentinitnelav.github.io/bootstrapnet/explain-sampling-method.html).

![](https://github.com/valentinitnelav/bootstrapnet/raw/master/man/cache/sample-nestedness-1-boot.gif)

See also the [README file][readme] on the GitHub code base.

[readme]: https://github.com/valentinitnelav/bootstrapnet?tab=readme-ov-file#overview

# Installation

See details in the [README file][install] on the GitHub code base.

[install]: https://github.com/valentinitnelav/bootstrapnet?tab=readme-ov-file#installation