diathor-package {diathor}R Documentation

diathor: Calculate Ecological Information and Diatom Based Indices

Description

Calculate multiple biotic indices using diatoms from environmental samples. Diatom species are recognized by their species' name using a heuristic search, and their ecological data is retrieved from multiple sources. It includes number/shape of chloroplasts diversity indices, size classes, ecological guilds, and multiple biotic indices. It outputs both a dataframe with all the results and plots of all the obtained data in a defined output folder. - Sample data was taken from Nicolosi Gelis, Cochero & Gómez (2020, doi:10.1016/j.ecolind.2019.105951). - The package uses the 'Diat.Barcode' database to calculate morphological and ecological information by Rimet & Couchez (2012, doi:10.1051/kmae/2012018),and the combined classification of guilds and size classes established by B-Béres et al. (2017, doi:10.1016/j.ecolind.2017.07.007). - Current diatom-based biotic indices include the DES index by Descy (1979) - EPID index by Dell'Uomo (1996, ISBN: 3950009002) - IDAP index by Prygiel & Coste (1993, doi:10.1007/BF00028033) - ID-CH index by Hürlimann & Niederhauser (2007) - IDP index by Gómez & Licursi (2001, doi:10.1023/A:1011415209445) - ILM index by Leclercq & Maquet (1987) - IPS index by Coste (1982) - LOBO index by Lobo, Callegaro, & Bender (2002, ISBN:9788585869908) - SLA by Sládeček (1986, doi:10.1002/aheh.19860140519) - TDI index by Kelly, & Whitton (1995, doi:10.1007/BF00003802) - SPEAR(herbicide) index by Wood, Mitrovic, Lim, Warne, Dunlop, & Kefford (2019, doi:10.1016/j.ecolind.2018.12.035) - PBIDW index by Castro-Roa & Pinilla-Agudelo (2014) - DISP index by Stenger-Kovács et al. (2018, doi:10.1016/j.ecolind.2018.07.026) - EDI index by Chamorro et al. (2024, doi:10.1021/acsestwater.4c00126) - DDI index by Álvarez-Blanco et al. (2013, doi: 10.1007/s10661-012-2607-z) - PDISE index by Kahlert et al. (2023, doi:10.1007/s10661-023-11378-4).

Author(s)

Maintainer: Joaquin Cochero jcochero@ilpla.edu.ar (ORCID)

Authors:


[Package diathor version 0.1.5 Index]