P_sojae_survey

Data from a Phytophthora sojae survey

datasets

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 and Schachtel's (1999)
<doi:10.1046/j.1365-3059.1999.00325.x> Habgood-Gilmour Spreadsheet,
'HaGiS', previously used for pathotype analysis.

Adam Sparks

hagis

Analysis of Plant Pathogen Pathotype Complexities, Distributions
and Diversity

Austin G. McCoy

Zachary Noel

Adam H. Sparks

Martin Chilvers

Jari Oksanen

Zhian N. Kamvar

Michigan Soybean Promotion Committee 

Project GREEEN 

North Central Soybean Research Program 

GRDC Project DAQ00186 

P_sojae_survey function

An object of class <code>data.table</code> with 294 observations of 12 variables<dl>
<dt>Isolate</dt>
<dd>P. sojae isolate identifier</dd><dt>Line</dt>
<dd>Soybean cultivar</dd><dt>Rps</dt>
<dd>Rps gene identifier</dd><dt>Total</dt>
<dd>Total number of plants inoculated</dd><dt>HR (1)</dt>
<dd>Number of plants that exhibit a hypersensitive response after
inoculation</dd><dt>Lesion (2)</dt>
<dd>Number of plants that develop a lesion at inoculation
site</dd><dt>Lesion to cotyledon (3)</dt>
<dd>Number of plants that develop a lesion,
which advances to the hypocotyl of the seedling after infection</dd><dt>Dead (4)</dt>
<dd>Number of dead plants that are observed after inoculation</dd><dt>total.susc</dt>
<dd>The total number of susceptible plants (Lesion+Lesion to
cotyledon+Dead)</dd><dt>total.resis</dt>
<dd>The total number of resistant plants (equal to HR
value)</dd>
</dl>

Format

Phytophthora sojae Survey Example Data — P_sojae_survey

An object of class <code>data.table</code> with 294 observations of 12 variables<dl>
<dt>Isolate</dt>
<dd>P. sojae isolate identifier</dd>

<dt>Line</dt>
<dd>Soybean cultivar</dd>

<dt>Rps</dt>
<dd>Rps gene identifier</dd>

<dt>Total</dt>
<dd>Total number of plants inoculated</dd>

<dt>HR (1)</dt>
<dd>Number of plants that exhibit a hypersensitive response after
inoculation</dd>

<dt>Lesion (2)</dt>
<dd>Number of plants that develop a lesion at inoculation
site</dd>

<dt>Lesion to cotyledon (3)</dt>
<dd>Number of plants that develop a lesion,
which advances to the hypocotyl of the seedling after infection</dd>

<dt>Dead (4)</dt>
<dd>Number of dead plants that are observed after inoculation</dd>

<dt>total.susc</dt>
<dd>The total number of susceptible plants (Lesion+Lesion to
cotyledon+Dead)</dd>

<dt>total.resis</dt>
<dd>The total number of resistant plants (equal to HR
value)</dd>


</dl>

Phytophthora sojae Survey Example Data

P_sojae_survey: Phytophthora sojae Survey Example Data

Description

Usage

Arguments

Format

Examples