scanSlopes | R Documentation |
Create a slope difference profile between two traits
scanSlopes(genotypes, phenotypes, phenocol = 1, doRank = FALSE, verbose = FALSE)
genotypes |
Matrix of genotypes. (individuals x markers) |
phenotypes |
Matrix of phenotypes. (individuals x phenotypes) |
phenocol |
Which phenotype column(s) should we analyse. Default: Analyse phenotype 1. |
doRank |
Transform quantitative data into ranked data before analyzing the slope. |
verbose |
Be verbose. |
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Danny Arends Danny.Arends@gmail.com
Maintainer: Danny Arends Danny.Arends@gmail.com
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CTLscan
- Main function to scan for CTL
CTLsignificant
- Significant interactions from a CTLscan
CTLnetwork
- Create a CTL network from a CTLscan
image.CTLobject
- Heatmap overview of a CTLscan
plot.CTLscan
- Plot the CTL curve for a single trait
library(ctl)
data(ath.metabolites) # Arabidopsis Thaliana data set
slopes <- scanSlopes(ath.metab$genotypes, ath.metab$phenotypes[,1:4], phenocol = 2)
image(1:nrow(slopes), 1:ncol(slopes), -log10(slopes))
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