addAMDISPeaks | Add AMDIS peak detection results |
addChromaTOFPeaks | Add ChromaTOF peak detection results |
addXCMSPeaks | addXCMSPeaks |
betweenAlignment | Data Structure for "between" alignment of many GCMS samples |
betweenAlignment-class | Data Structure for "between" alignment of many GCMS samples |
betweenAlignment-method | Data Structure for "between" alignment of many GCMS samples |
betweenAlignment-show | Data Structure for "between" alignment of many GCMS samples |
calcTimeDiffs | Calculate retention time shifts from profile alignments |
clusterAlignment | Data Structure for a collection of all pairwise alignments of GCMS runs |
clusterAlignment-class | Data Structure for a collection of all pairwise alignments of GCMS runs |
clusterAlignment-plot | Data Structure for a collection of all pairwise alignments of GCMS runs |
clusterAlignment-show | Data Structure for a collection of all pairwise alignments of GCMS runs |
corPrt | Retention Time Penalized Correlation |
de_Duper | deDuper |
distToLib | distToLib |
dp | Dynamic programming algorithm, given a similarity matrix |
dynRT | dynRT |
eitherMatrix-class | A class description |
exportSpectra | exportSpectra |
gatherInfo | Gathers abundance informations from an alignment |
headToTailPlot | Head to tail plot |
importSpec | importSpec |
imputePeaks | Imputatin of locations of peaks that were undetected |
matchSpec | matchSpec |
multipleAlignment | Data Structure for multiple alignment of many GCMS samples |
multipleAlignment-class | Data Structure for multiple alignment of many GCMS samples |
multipleAlignment-class, | Data Structure for multiple alignment of many GCMS samples |
multipleAlignment-method | Data Structure for multiple alignment of many GCMS samples |
multipleAlignment-show, | Data Structure for multiple alignment of many GCMS samples |
ndpRT | Retention Time Penalized Normalized Dot Product |
normDotProduct | Normalized Dot Product |
parseChromaTOF | Parser for ChromaTOF files |
parseELU | Parser for ELU files |
peaksAlignment | Data Structure for pairwise alignment of 2 GCMS samples |
peaksAlignment-class | Data Structure for pairwise alignment of 2 GCMS samples |
peaksAlignment-plot | Data Structure for pairwise alignment of 2 GCMS samples |
peaksAlignment-show | Data Structure for pairwise alignment of 2 GCMS samples |
peaksDataset | Data Structure for raw GCMS data and peak detection results |
peaksDataset-class | Data Structure for raw GCMS data and peak detection results |
peaksDataset-plot | Data Structure for raw GCMS data and peak detection results |
peaksDataset-show | Data Structure for raw GCMS data and peak detection results |
plot-method | Data Structure for a collection of all pairwise alignments of GCMS runs |
plot-method | Data Structure for pairwise alignment of 2 GCMS samples |
plot-method | Data Structure for raw GCMS data and peak detection results |
plotAlignedFrags | plotAlignedFrags |
plotAlignment-method | plotAlignment |
plotChrom-method | Plotting functions for GCMS data objects |
plotClustAlignment-method | plotClustAlignment |
plotFrags | plotFrags |
plotImage | Plot of images of GCMS data |
plotImage-method | Plot of images of GCMS data |
progressiveAlignment | Data Structure for progressive alignment of many GCMS samples |
progressiveAlignment-class | Data Structure for progressive alignment of many GCMS samples |
progressiveAlignment-show | Data Structure for progressive alignment of many GCMS samples |
retFatMatrix | retFatMatrix |
rmaFitUnit | Fits a robust linear model (RLM) for one metabolite |
show, | Data Structure for "between" alignment of many GCMS samples |
show-method | Data Structure for a collection of all pairwise alignments of GCMS runs |
show-method | Data Structure for pairwise alignment of 2 GCMS samples |
show-method | Data Structure for raw GCMS data and peak detection results |
show-method | Data Structure for progressive alignment of many GCMS samples |
show-method | Store the raw data and optionally, information regarding signal peaks for a number of GCMS runs |