floweringTime function

Flowering time data taken from Atwell et al. (2010).

Two data-frames containing individual plant data on flowering time under different conditions: LDV (Flowering time under long days and vernalization) and LD (Flowering time under long days, without vernalization). data

data(LD); data(LDV)

Format

Data-frames with flowering time observations, genotype and design information:

• genotype: a factor, the levels being the accession or ecotype identifiers
• LD: Flowering time under long days, in number of days
• LDV: Flowering time under long days and vernalization, in number of days
• replicate: The replicate (or block) each plant is contained in (factor with levels 1 to 6)
• rep1: numeric encoding of the factor replicate: equals 1 if the plant is in replicate 1 and 0 otherwise
• rep2: numeric encoding of the factor replicate: equals 1 if the plant is in replicate 2 and 0 otherwise
• rep3: numeric encoding of the factor replicate: equals 1 if the plant is in replicate 3 and 0 otherwise
• rep4: numeric encoding of the factor replicate: equals 1 if the plant is in replicate 4 and 0 otherwise
• rep5: numeric encoding of the factor replicate: equals 1 if the plant is in replicate 5 and 0 otherwise

Details

All plants that had not flowered by the end of the experiment were given a phenotypic value of 200. Only accessions for which SNP-data are available are included here: 167 accessions in case of LD and 168 accessions in case of LDV.

References

• Atwell, S., Y. S. Huang, B. J. Vilhjalmsson, G. Willems, M. Horton, et al. (2010) Genome-wide association study of 107 phenotypes in Arabidopsis thaliana inbred lines. Nature 465: 627-631.
• Kruijer, W. et al. (2015) Marker-based estimation of heritability in immortal populations. Genetics, Vol. 199(2), p. 1-20.

See Also

For the corresponding genetic relatedness matrix, see K_atwell.

Examples

data(LD); data(LDV)