BuildDataAndLines | A helper function for the PlotPair functions (i.e. the... |
CreateCrossValFolds | Creates multiple cross-validation folds from the data. Format... |
DistPvalues | Visualize the distribution of unadjusted p-values from linear... |
DistRSquared | Visualize the distribution of unadjusted p-values from linear... |
FilterData | Filter input data by abundance values and number of missing... |
FilterDataFolds | Filter input data by abundance values (analyte data) and... |
getQuantileForInteractionCoefficient | Function that gets numeric cutoffs from percentile |
getStatsAllLM | Function that runs Linear Models for all analytes |
getstatsOneLM | Function that runs linear models for analyte vs. all analytes... |
HistogramPairs | histogram of analyte pairs depending upon independent or... |
InteractionCoefficientGraph | Graphs a scatterplot of pairs vs. the interaction coefficient... |
IntLimData-class | IntLimData class |
IntLIM-package | IntLIM: Integration of Omics Data Using Linear Modeling |
IntLimResults-class | IntLimResults class |
MarginalEffectsGraph | Creates a dataframe of the marginal effect of phenotype |
MarginalEffectsGraphDataframe | Creates a dataframe of the marginal effect of phenotype |
multi.which | A which for multidimensional arrays. Mark van der Loo... |
OutputData | Output data into individual CSV files. All data will be... |
OutputResults | Output results into a zipped CSV file. Results include gene... |
PermutationCountSummary | Return the number of significant analytes and the number of... |
PermutationPairSummary | Return the number of significant analytes / pairs per... |
PermuteIntLIM | Run permutations of the IntLIM code to search for random... |
PlotDistributions | Get some stats after reading in data |
PlotFoldOverlapUpSet | Makes an UpSet plot showing the filtered pairs of analytes... |
PlotPair | scatter plot of pairs (based on user selection) |
PlotPairFlat | scatter plot of pairs (based on user selection). This version... |
PlotPCA | PCA plots of data for QC |
ProcessResults | Retrieve significant pairs, based on adjusted p-values. For... |
ProcessResultsAllFolds | Retrieve significant pairs, based on adjusted p-values,... |
ProcessResultsContinuous | Retrieve significant pairs (aka filter out nonsignificant... |
pvalCoefVolcano | 'volcano' plot (difference in correlations vs p-values) of... |
PValueBoxPlots | Visualize the distribution of unadjusted p-values for all... |
ReadData | Read in CSV file |
RemovePlusInCovars | RemovePlusInCovars |
RunCrossValidation | Runs the cross-validation end-to-end using the following... |
RunIntLim | Run linear models and retrieve relevant statistics |
RunIntLimAllFolds | Run linear models for all data folds. This is a wrapper to... |
runIntLIMApp | run shiny app |
RunLM | Function that runs linear models and returns interaction... |
ShowStats | Get some stats after reading in data |
Add the following code to your website.
For more information on customizing the embed code, read Embedding Snippets.