evalucc: Evaluation of core collection.

In ccChooser: Developing a core collections

Description

This function evaluation efficiency of the new core collection, using the four parameters.

Usage

evalucc(CC, EC)

Arguments

CC	data frame including value of quantitaive traits (phenotypic data) for core collection
EC	data frame including value of quantitaive traits (phenotypic data) for entire collection

Details

The DD The MD The VD The RR

Value

Return a matrix present a value of four parameters- DD

Author(s)

Marcin Studnicki and Konrad Debski

References

For information about the evaluation of core collection, see:

Franco J., Crossa J., Taba S., Shands H. 2005. A sampling strategy for conserving genetic diversity when forming core subsets. Crop Sci. 45:1035-1044

Hu J., Zhu J., Xu H.M. 2000. Methods of constructing core collections by stepwise clustering with three sampling strategies based on the genotypic values of crops. Theoretical and Applied Genetics 101:264-268

Kim K.W., Chung H.K., Cho G.T., Ma K.H., Chandrabalan D., Gwag J.G., Kim T.S., Cho E.G., Park Y.J. 2007. PowerCore: a program applying the advanced M strategy with a heuristic search for establishing core sets. Bioinformatics 23:2155-2162

Studnicki, M., Madry, W., Kociuba, W. 2010. The efficiency and effectiveness of sampling strategies used to develop a core collection for the Polish spring triticale (Triticosecale Wittm.) germplasm resources. Communications in Biometry and Crop Science 5:127-137

Wang J., Hu J., Zhang C.F., Zhang S. 2007. A strategy on constructing core collections by least distance stepwise sampling. Theoretical and Applied Genetics 15:1-8

Examples

data(dactylis_CC)
data(dactylis_EC)
dactylis_EC<-subset(dactylis_EC, select= -UPGMA)
evalucc(dactylis_CC, dactylis_EC)

Example output

Loading required package: cluster

 Evaluation of core collection 
 
1) DD%       6.066015 
 
2) MD%       -1.184049 
 
3) VD%       37.993 
 
4) RR%       -13.94355 
 

ccChooser documentation built on May 1, 2019, 10:56 p.m.