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Modeling and Analysis","monthly_downloads":267,"total_dependent_repos":0,"total_dependent_packages":0,"readme":"---\noutput: github_document\n---\n\n\u003c!-- README.md is generated from README.Rmd. Please edit that file --\u003e\n\n```{r, include = FALSE}\nknitr::opts_chunk$set(\n  collapse = TRUE,\n  comment = \"#\u003e\",\n  fig.path = \"man/figures/README-\",\n  out.width = \"100%\"\n)\n```\n\n# dfoliatR \u003cimg src=\"man/figures/logo.png\" align=\"right\" width=\"120\" /\u003e\n\n\u003c!-- badges: start --\u003e\n[![R build status](https://github.com/chguiterman/dfoliatR/workflows/R-CMD-check/badge.svg)](https://github.com/chguiterman/dfoliatR/actions)\n[![Coverage Status](https://coveralls.io/repos/github/chguiterman/dfoliatR/badge.svg?branch=master)](https://coveralls.io/github/chguiterman/dfoliatR?branch=master)\n[![CRAN_Status_Badge](https://www.r-pkg.org/badges/version/dfoliatR)](https://cran.r-project.org/package=dfoliatR)\n[![DOI](https://zenodo.org/badge/DOI/10.5281/zenodo.3626135.svg)](https://doi.org/10.5281/zenodo.3626135)\n\n\n\u003c!-- badges: end --\u003e\n\nThe goal of `dfoliatR` is to provide dendrochronologists with tools for identifying and analyzing the signatures of insect defoliators preserved in tree rings. The methods it employs closely follow (or in some cases exactly replicate) OUTBREAK, a FORTRAN program available from the [Dendrochronological Program Library](https://www.ltrr.arizona.edu/pub/dpl/). \n\nWhen using `dfoliatR` in a publication, please cite the paper:\n\n\u003eGuiterman, CH, AM Lynch, and JN Axelson (2020) [`dfoliatR`: An R package for detection and analysis of insect defoliation signals in tree rings.](https://authors.elsevier.com/sd/article/S1125786520300898) _Dendrochronologia_. DOI: 10.1016/j.dendro.2020.125750.\n\n## Installation\n\nYou can install the released version of dfoliatR from [CRAN](https://CRAN.R-project.org) with:\n\n``` r\ninstall.packages(\"dfoliatR\")\n```\n\nAnd the development version from [GitHub](https://github.com/) with:\n\n``` r\n# install.packages(\"devtools\")\ndevtools::install_github(\"chguiterman/dfoliatR\")\n```\n\n## Usage\n\nThe package requires users to input two sets of tree-ring data: standardized ring widths of individual host trees and a standardized tree-ring chronology from a local non-host tree species or climate series. `dfoliatR` combines these to remove the climate signal represented by the non-host chronology from the host tree series. What's left should represent a disturbance signal. Then `dfoliatR` identifies defoliation events in the host tree series. \n\nWe recommend that the input tree-ring data be standardized in either ARSTAN or the `dplR` R package. 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