.plotcA |
Plotting functions for GCMS data objects |
.plotpA |
Plotting functions for GCMS data objects |
.plotpD |
Plotting functions for GCMS data objects |
addAMDISPeaks |
Add AMDIS peak detection results |
addChromaTOFPeaks |
Add ChromaTOF peak detection results |
betweenAlignment |
Data Structure for "between" alignment of many GCMS samples |
betweenAlignment-class |
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 |
compress |
Compress an alignment object |
compress,clusterAlignment-method |
Compress an alignment object |
compress,peaksAlignment-method |
Compress an alignment object |
compress,progressiveAlignment-method |
Compress an alignment object |
decompress |
Compress an alignment object |
decompress,clusterAlignment-method |
Compress an alignment object |
decompress,peaksAlignment-method |
Compress an alignment object |
decompress,progressiveAlignment-method |
Compress an alignment object |
dp |
Dynamic programming algorithm, given a similarity matrix |
gatherInfo |
Gathers abundance informations from an alignment |
imputePeaks |
Imputatin of locations of peaks that were undetected |
multipleAlignment |
Data Structure for multiple alignment of many GCMS samples |
multipleAlignment-class |
Data Structure for multiple alignment of many GCMS samples |
multipleAlignment-show |
Data Structure for multiple alignment of many GCMS samples |
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 |
Plotting functions for GCMS data objects |
plot,clusterAlignment-method |
Data Structure for a collection of all pairwise alignments of GCMS runs |
plot,peaksAlignment-method |
Data Structure for pairwise alignment of 2 GCMS samples |
plot,peaksDataset-method |
Data Structure for raw GCMS data and peak detection results |
plotImage |
Plot of images of GCMS data |
plotImage,peaksDataset-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 |
rmaFitUnit |
Fits a robust linear model (RLM) for one metabolite |
show,betweenAlignment-method |
Data Structure for "between" alignment of many GCMS samples |
show,clusterAlignment-method |
Data Structure for a collection of all pairwise alignments of GCMS runs |
show,multipleAlignment-method |
Data Structure for multiple alignment of many GCMS samples |
show,peaksAlignment-method |
Data Structure for pairwise alignment of 2 GCMS samples |
show,peaksDataset-method |
Data Structure for raw GCMS data and peak detection results |
show,progressiveAlignment-method |
Data Structure for progressive alignment of many GCMS samples |