Annotation of Isotopes, Adducts and Fragmentation Adducts for
in-Source LC/MS Metabolomics Data
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Documentation for package ‘cliqueMS’ version 1.14.1
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| cliqueMS-package | 'cliqueMS' annotates isotopes and adducts in m/z data |
| anClique | 'anClique' class constructor |
| anClique-class | 'anClique' S4 class for annotating isotopes and adducts |
| cliqueMS | 'cliqueMS' annotates isotopes and adducts in m/z data |
| computeCliques | Computes clique groups from a similarity network |
| createanClique | 'createanClique' generic function to create an object of class 'anClique'. |
| createanClique-method | 'createanClique' generic function to create an object of class 'anClique'. |
| createNetwork | Generic function to create a similarity network from processed m/z data |
| createNetwork-method | Generic function to create a similarity network from processed m/z data |
| ex.cliqueGroups | Example m/z processed data |
| getAnnotation | Annotate adducts and fragments |
| getCliques | Compute clique groups from processed m/z data |
| getIsolistanClique | 'anClique' S4 class for annotating isotopes and adducts |
| getIsolistanClique-method | 'anClique' S4 class for annotating isotopes and adducts |
| getIsolistanClique<- | 'anClique' S4 class for annotating isotopes and adducts |
| getIsolistanClique<--method | 'anClique' S4 class for annotating isotopes and adducts |
| getIsotopes | Annotate isotopes |
| getlistofCliques | 'anClique' S4 class for annotating isotopes and adducts |
| getlistofCliques-method | 'anClique' S4 class for annotating isotopes and adducts |
| getlistofCliques<- | 'anClique' S4 class for annotating isotopes and adducts |
| getlistofCliques<--method | 'anClique' S4 class for annotating isotopes and adducts |
| getNetanClique | 'anClique' S4 class for annotating isotopes and adducts |
| getNetanClique-method | 'anClique' S4 class for annotating isotopes and adducts |
| getNetanClique<- | 'anClique' S4 class for annotating isotopes and adducts |
| getNetanClique<--method | 'anClique' S4 class for annotating isotopes and adducts |
| getPeaklistanClique | 'anClique' S4 class for annotating isotopes and adducts |
| getPeaklistanClique-method | 'anClique' S4 class for annotating isotopes and adducts |
| getPeaklistanClique<- | 'anClique' S4 class for annotating isotopes and adducts |
| getPeaklistanClique<--method | 'anClique' S4 class for annotating isotopes and adducts |
| hasAnnotation | 'anClique' S4 class for annotating isotopes and adducts |
| hasAnnotation-method | 'anClique' S4 class for annotating isotopes and adducts |
| hasAnnotation<- | 'anClique' S4 class for annotating isotopes and adducts |
| hasAnnotation<--method | 'anClique' S4 class for annotating isotopes and adducts |
| hasCliques | 'anClique' S4 class for annotating isotopes and adducts |
| hasCliques-method | 'anClique' S4 class for annotating isotopes and adducts |
| hasCliques<- | 'anClique' S4 class for annotating isotopes and adducts |
| hasCliques<--method | 'anClique' S4 class for annotating isotopes and adducts |
| hasIsotopes | 'anClique' S4 class for annotating isotopes and adducts |
| hasIsotopes-method | 'anClique' S4 class for annotating isotopes and adducts |
| hasIsotopes<- | 'anClique' S4 class for annotating isotopes and adducts |
| hasIsotopes<--method | 'anClique' S4 class for annotating isotopes and adducts |
| negative.adinfo | Default list of negative charged adducts |
| positive.adinfo | Default list of positive charged adducts |
| show-method | 'anClique' S4 class for annotating isotopes and adducts |