Man pages for MetCirc
Navigating mass spectral similarity in high-resolution MS/MS metabolomics data
| cart2Polar | Calculate polar coordinates from cartesian coordinates |
| circosLegend | Plot a legend for circos plot |
| compare_Spectra | Create similarity matrix from 'MSnbase::MSpectra' object |
| compartmentTissue | Example data for 'MetCirc': 'compartmentTissue' |
| convertExampleDF | Example data for 'MetCirc': convertExampleDF |
| convertMsp2Spectra | Convert MSP data frame into object of class 'MSpectra' |
| createLink0df | Create a link matrix |
| createLinkDf | Create a data frame which contains features to link (indices) |
| cutLinkDf | Create a cut data frame with information on links |
| getLinkDfIndices | Get indices in linkDf of feature |
| highlight | Add links and highlight sectors |
| minFragCart2Polar | Calculate the nearest feature in polar coordinates given... |
| msp2spectra | Example data for 'MetCirc': 'msp2spectra' |
| neutralloss | Calculate similarity based on neutral losses |
| normalizeddotproduct | Calculate the normalized dot product |
| orderSimilarityMatrix | Order columns and rows of a similarity matrix according to... |
| plotCircos | Circular plot to visualise similarity |
| plotSpectra | Plot pair-wise spectra |
| printInformationSelect | Display information on connected features of selected... |
| recordPlotFill_degreeFeatures | Record a plot of filled features and the degree of features |
| recordPlotHighlight | Return a 'recordedplot' of 'plotCircos' plot with 'highlight... |
| replayPlotAdd | Plot plotCircos or highlight |
| replayPlotOrder | Wrapper for 'replayPlot' |
| sd01_outputXCMS | Example data for 'MetCirc': 'sd01_outputXCMS' |
| sd02_deconvoluted | Example data for 'MetCirc': sd02_deconvoluted |
| select | Select variable based on condition |
| shinyCircos | Interactive visualisation of similarity and navigation of... |
| similarityMat | Example data for 'MetCirc': 'similarityMat' |
| spectraCond | Get MS/MS spectra that are present in condition |
| spectra_tissue | Example data for 'MetCirc': 'spectra_tissue' |
| thresholdLinkDf | Threshold a data frame containing information on links |
| tissue | Example data for 'MetCirc': 'tissue' |
| typeMatch_link0 | Get typeMatch and link0 data frame |
