Plot CTL results as bar, line or GWAS plot.
Print the results of a single phenotype CTL scan
Differential correlation versus likelihood plotted in curves
Print the results of a CTL genome scan
CTLmapping - Scan for correlated trait loci (CTL)
Plot CTL curves or heatmaps
CTLnetwork - Interaction network from a genome-wide CTLscan of multiple traits
CTLprofiles - Extract CTL interaction profiles
scanSD - Analyze the differences in Standard Deviation between genotypes between two traits
ctl.load - Load CTLs calculated by the D2.0 version
Lineplot CTL on multiple traits
QTLmapping - QTL mapping method for CTL analysis
Plot a QTL heatmap of the phenotypes scanned by CTLscan
CTLscan - Scan for Correlated Trait Locus (CTL)
CTLregions - Get all significant interactions from a genome-wide CTLscan
scanSD.cross - Analyze the differences in standard deviation between two traits at a certain genetic marker (R/qtl cross object)
scanSlopes.cross - Create a slope difference profile between two traits (R/qtl cross object)
scanSlopes - Create a slope difference profile between two traits
Example gene expression data from Saccharomyces cerevisiae on 301 RNA expressions.
detect.peaks - Peak detection algorithm to 'flatten' data above a certain threshold
CTLsignificant - Get all significant interactions from a genome-wide CTLscan
plotTraits - Trait vs Trait scatterplot, colored by the selected genetic locus
CTLscan.cross - Scan for Correlated Trait Locus (CTL) (R/qtl cross object)
CTL - CTL mapping in experimental crosses
Plot histogram of CTL permutations
Plot genome-wide CTL on multiple traits
CTLhelper - Helper functions for CTL mapping
Internal CTL functions
Example metabolite expression data from Arabidopsis Thaliana on 24 metabolites.
Output of QCLscan after 5000 permutations on the metabolite expression data from Arabidopsis Thaliana.
Create quality control plots.
Example metabolite expression data from Arabidopsis Thaliana on 9 metabolites.
Circleplot CTL on multiple traits