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Performs wood cell anatomical data analyses on spatially explicit xylem (tracheids) data sets derived from wood anatomical thin sections. The package includes functions for the visualization, alignment and detection of continuous tracheid radial file (defines as rows) and tracheid position within an annual ring of coniferous species. This package is designed to use elaborate cell output, like provided with ROXAS (von Arx and Carrer,2014). The package has been validated forPicea abies,Larix Siberica,Pinus cembra andPinus sylvestris.

This repository contains the release version of RAPTOR for submission to theComprehensive R Archive and Network (CRAN) and accompanies the manuscriptPeters et al. (2018).This document outlines the package installation process and provides initialsteps for using the package's functions via examples provided in the package documentation.

A development version ofRAPTOR can be installed and used via

remotes::install_github("the-Hull/RAPTOR")library(RAPTOR)

The stable CRAN version can be installed using

install.packages("RAPTOR")library(RAPTOR)

The package's functions are to be executed sequentially (cf.manuscript):

1. is.raptor()
2. graph.cells()
3. align()
4. first.cell()
5. pos.det()
6. write.output()
7. batch.mode() is a convenient 'wrapper' function streamlining steps 1 through 6
8. anatomy.data calls complimentary example data sets

Each function is complimented by detailed documentation, which can be accessed by callinga function's name preceded by a question mark, i.e.:

"?is.raptor()".

Simple examples illustrating each function's usage areprovided at the bottom of each documentation file.The functions can be tested and explored using thecomplimentary example data sets (seemanuscriptor execute "?anatomy.data" in an R session.)

To begin exploring the package, navigate toExamples in the documentation of "?is.raptor()":

#validating example datainput<-example.data(species="LOT_PICEA")input<-is.raptor(input,str=TRUE)input

• Richard L. Petersrichardlouispeters3@hotmail.com [aut, cre, cph]
• Daniel Balanzategui [ctr]
• Alexander G. Hurley [ctr]
• Georg von Arx [ctr]
• Angela Luisa Prendin [ctr]
• Henri E. Cuny [ctr]
• Jesper Bjoerklund [ctr]
• David C. Frank [ctr]
• Patrick Fonti [ths, ctr, fnd]

Please note that the 'RAPTOR' project is released with aContributor Code of Conduct.By contributing to this project, you agree to abide by its terms.

Please cite this work as:

Peters, R.L., Balanzategui, D., Hurley, A.G., von Arx, G., Prendin, A.L., Cuny, H.E., Björklund, J., Frank, D.C. and Fonti, P., 2018. RAPTOR: Row and position tracheid organizer in R. Dendrochronologia, 47, pp.10-16.