data-Praw: Modeled phenotypic data used in thesis

In digiYozhik/msc_thesis: Functions to support master thesis

Description

Modeled phenotypic data used in thesis

Usage

Praw

Details

The data comes from a field trial that is part of a cotton breeding program. The trial was set up in 2012 across 7 locations in the US Cotton Belt. At every location the same bi–parental BC_3F_2 was grown together with a number of entries serving as checks. Yield performance measurements were averaged per plot. Location 7 was excluded from the analysis. Next, a linear mixed model was applied to obtain BLUP predictions for the yield performance measures where the yield performance measures were adjusted using the information of the checks, and where a spatial (AR1xAR1) covariance structure was applied for the rows and ranges in the fields. The resulting data frame holds information of 1774 observations and 19 features. The features are detailed below and represent the columns in the data frame.

MERGE:

Observation names, which are the combined names of the entries and the locations.

GERMPLASM:

The entry names.

LOCATION:

The name of the locations.

OVERALL_RANGE:

The range coordinates when all fields are seen as being part of one big field, i.e. same reference grid for all fields.

OVERALL_ROW:

The row coordinates when all fields are seen as being part of one big field, i.e. same reference grid for all fields.

RANGEROW:

A combination of the range and row coordinates.

ROW:

The coordinates for the rows linked to the locations. Here the reference grid is the location itself.

RANGE:

The coordinates for the ranges linked to the locations. Here the reference grid is the location itself.

PLOT:

The reference to the plot of the observation.

YIELD:

The average yield performance measures of the plots for the respective observations.

EXPERIMENT:

Name of the experiment.

SUBSUBBLOCK:

Placeholder in case subsubblocks were defined in case of blocking. Not used here.

SUBBLOCK:

Placeholder in case subblocks were defined in case of blocking. Not used here.

BLOCK:

Placeholder in case blocks were defined in case of blocking. Not used here.

CHECK:

Numeric showing whether the observation is a check. Here the checks were already filtered out.

ROWf:

Factor for ROW.

RANGEf:

Factor for RANGE.

residuals:

Residuals obtained after applying the above described linear mixed model.

predicted.values:

BLUP predictions from the fitted above described linear mixed model.

Author(s)

Ruud Derijcker

Examples

data(Praw)
str(Praw)

digiYozhik/msc_thesis documentation built on May 14, 2019, 5:16 p.m.