Analysis of Plant Pathogen Pathotype Complexities, Distributions and Diversity

Analysis of plant pathogen pathotype survey data. Functions provided calculate distribution of susceptibilities, distribution of complexities with statistics, pathotype frequency distribution, as well as diversity indices for pathotypes. This package is meant to be a direct replacement for Herrmann, Löwer, Schachtel's (1999) Habgood-Gilmour Spreadsheet, 'HaGiS', previously used for pathotype analysis.


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install.packages("hagis")

3.0.1 by Adam H. Sparks, 3 days ago


https://github.com/openplantpathology/hagis, https://openplantpathology.github.io/hagis/


Report a bug at https://github.com/openplantpathology/hagis/issues


Browse source code at https://github.com/cran/hagis


Authors: Austin G. McCoy [aut, ccp] , Zachary Noel [aut, ccp] , Adam H. Sparks [aut, cre] , Martin Chilvers [aut] , Zhian N. Kamvar [ctb, rev] , Michigan Soybean Promotion Committee [fnd] , Project GREEEN [fnd] , North Central Soybean Research Program [fnd] , GRDC Project DAQ00186 [fnd]


Documentation:   PDF Manual  


MIT + file LICENSE license


Imports data.table, ggplot2, pander, stats, utils

Suggests covr, knitr, rmarkdown, testthat, vdiffr


See at CRAN