mQTL.NMR-package |
Metabolomic Quantitative Trait Locus mapping for 1H NMR data |
alignSp |
Base function for Spectrum Alignment |
align_mQTL |
Peak alignment and normalisation of metabolomic data |
attachSegments |
Concatenation of test and reference segments |
circle_mQTL |
Circular genome-metabolome plot for mQTL.NMR |
configureRSPA |
segmentaion and recursive alignment parameters |
format_mGWA |
Routine to reformat the data into the required format to perform mGWAS |
format_mQTL |
Routine to reformat the data of animal crosses into the required format to perform mQTL mapping |
load_datafiles |
Load data files for examples |
load_demo_data |
Load demo data files |
matchSegments |
Matching the segment of interest to the corresponding reference |
mQTL.NMR |
Metabolomic Quantitative Trait Locus mapping for 1H NMR data |
normalise |
Base function of normalisation |
normalise_mQTL |
Normalisation of metabolomic data |
peakPeaks |
Peak picking algorithm |
post_mQTL |
Plot top LOD results |
ppersp |
Plot a 3-D profile of LODs |
pplot |
Plot a color scale layer |
pre_mQTL |
Statistical Recoupling of variables for mQTL analysis |
process_mGWA |
Metabolomic Genome-Wide Association analysis for a set of independent individuals |
process_mQTL |
mQTL mapping |
segmentateSp |
Segmentation of a spectrum of interest |
selectRefSp |
Automated selection of a reference spectrum |
setupRSPA |
setup of alignment parameters |
sgolay |
Find the matrix of differentiation filters |
sgolayDeriv |
Calculate smoothed derivates |
simple.plot |
Plot NMR profile plus SRV regions |
SRV |
Statistical Recoupling of Variables |
SRV.plot |
Plot SRV clusters |
SRV_lod.plot |
Plot top lod SRV clusters |
summary_mQTL |
Function to summarize the mQTL mapping results of all the runs and their differences |
Top_SRV.plot |
Plot top SRV clusters |