genotypes {MetaNetwork} | R Documentation |
Example matrix of genotypes
for each marker (rownames) and 162 Arabidopsis thaliana
individuals (columnnames), as numeric values 1, 2 or NA when missing:
> data(genotypes) > genotypes[1:5,1:5]
X1 | X3 | X4 | X5 | X6 | |
PVV4 | 1 | 1 | 2 | 1 | 2 |
AXR-1 | 1 | 1 | 2 | 1 | 2 |
HH.335C-Col | 1 | 1 | 1 | 1 | 2 |
DF.162L/164C-Col | 1 | 1 | 1 | 1 | 2 |
EC.480C | 1 | 1 | 1 | 1 | 2 |
data(genotypes)
117 markers by 162 samples (RILS).
Jingyuan Fu <j.fu@rug.nl>, Joost Keurentjes <Joost.Keurentjes@wur.nl>, Morris Swertz <m.a.swertz@rug.nl>, Ritsert Jansen <r.c.jansen@rug.nl>
Keurentjes JJB, FU J, de vos CHR, Lommen A, Hall RD, Bino RJ, van der Plas LHW, Jansen RC, Vreugdenhil D and Koornneef M. The genetics of plant metabolism. Nature Genetics (2006) 7: 842-849.
Fu J, Swertz MA, Keurentjes JJB, Jansen RC. MetaNetwork: a computational tool for the genetic study of metabolism. Nature Protocols (2007).
http://gbic.biol.rug.nl/supplementary/2007/MetaNetwork
Use MetaNetwork
for automated analysis of this data set as part
a genetic analysis protocol on metabolites.
Use qtlMapTwoPart
for the calculation of qtlProfiles
form genotypes
.