MtreeRing: An R package with graphical user interface for automatic measurement of tree ring widths using image processing techniques |
| |
| Affiliation: | 1. Forest Resources Management, University of Liège, Gembloux Agro-Bio Tech, Passage des Déportés 2, 5030 Gembloux, Belgium;2. Service of Wood Biology, Royal Museum for Central Africa, Leuvensesteenweg 13, 3080 Tervuren, Belgium;1. Lamont-Doherty Earth Observatory of Columbia University, Palisades, NY, United States;2. Department of Earth and Spatial Sciences, University of Idaho, Moscow, Idaho, United States;3. Faculty of Science, Charles University in Prague, Prague, Czech Republic;1. Department of Forest Monitoring, “Marin Drăcea“ Romanian National Institute for Research and Development in Forestry, 128 Eroilor Blvd., 077190 Voluntari, Ilfov, Romania;2. Department of Forest Engineering, Forest Management Planning and Terrestrial Measurements, Faculty of Silviculture and Forest Engineering, “Transilvania” University, 1 Ludwig van Beethoven Str., 500123 Braşov, Romania;3. The Academy of Agricultural and Forestry Sciences “Gheorghe Ionescu-Şişeşti”, Bvd Mărăști 61, 011464 București, Romania;1. UGCT – Ghent University, Department of Forest and Water Management, Laboratory of Wood Technology, Coupure Links 653, 9000 Ghent, Belgium;2. Swedish University of Agricultural Sciences, Centre for Image Analysis, Box 337, SE-751 05 Uppsala, Sweden;3. UGCT – Ghent University, Department of Physics and Astronomy, Proeftuinstraat 86, 9000 Ghent, Belgium;4. Flanders Heritage Agency, Koning Albert II-laan 19, bus 5, 1210 Brussels, Belgium |
| |
| Abstract: | Accurate measurements of ring-width series are essential for dendrochronological analyses. We present an R package MtreeRing for ring-width measurements on scanned digital images. A morphological alternate sequential filter is used for noise reduction in the original image. Ring boundaries are determined by the steepest negative slopes in the light reflectance of latewood-earlywood transitions. To automatically identify tree rings, the package provides three alternative methods (watershed-based segmentation, Canny edge detector, and a linear detection algorithm), each with advantages and disadvantages and suited to different wood anatomical features. The user can also manually mark tree rings on species with complex anatomical structures. The arcs of inner-rings and angles of successive inclined ring boundaries are used to correct ring-width series. Differences in ring-width measurements between MtreeRing and WinDENDRO in a given coniferous species (Larix gmelinii) were assessed, and no significant difference between programs was found. Furthermore, the package provides an R-based web application which was developed using the Shiny framework. This beginner-friendly application allows viewing and interacting with tree ring images. It requires no programming experience and can run on either a local computer or a remote server. |
| |
| Keywords: | Tree ring width Automatic measurement R package Graphical user interface (GUI) |
| 本文献已被 ScienceDirect 等数据库收录！ |
|
