Package index • SciDataReportR

All functions

AddToCodebook(): Add a new variable to a codebook

CombineCodebooks(): Combine Two Codebooks with Conflict Detection

ConvertOrdinalToNumeric(): ConvertOrdinalToNumeric

CreateMCATable(): CreateMCATable

CreatePCATable(): Create PCA Table and Visualization

CreatePathwayPlot_KT(): Create Kynurenine-Tryptophan Pathway Plot

CreateProjectFolders(): Create Project Folder Structure

CreateStatisticsTable(): Create Statistics Table

CreateSummaryTable(): Create Summary Table

CreateVariableTypesTemplate(): Create a Template for Variable Types

CreateZScorePlot(): Create a Z-Score Plot with Statistical Significance

FormattedDataDictionary(): Create a formatted data dictionary table

InsertValues(): Insert Values into a String Array

MakeComparisonTable(): Make Comparison Table with Covariate Adjustment, Effect Sizes, Pairwise Contrasts, and Optional Overall Summary

MakeTable1(): Create Summary Table using gtsummary

Make_DataDictionary(): Create a data dictionary for a data frame

Merge_ByClosestTime(): Merge Two Data Frames by Closest Time

Plot2GroupStats(): Plot & Summarize Group Stats via MakeComparisonTable (BH q from p; SHAPE by p; COLOR by Category (vector or data frame); stable point size; palette via paletteer)

PlotAnovaRelationshipsMatrix(): Plot ANOVA Relationships Matrix

PlotAssociations(): Plot Associations

PlotBlandAltman(): Plot Bland-Altman Agreement Plot

PlotCatInteractionEffectsMatrix(): Plot Categorical Interaction Effects Matrix

PlotCategoricalDistributions(): Plot Categorical Distributions

PlotChiSqCovar(): Plot Chi-Square Test with Covariate

PlotContinuousDistributions(): Plot Continuous Distributions

PlotCorrelationsHeatmap(): Plot Correlations Heatmap

PlotDirectionalHeatmaps(): Create directional heatmaps across continuous & binary variables

PlotInteractionEffectsContinuous(): PlotInteractionEffectsContinuous

PlotMiningMatrix(): PlotMiningMatrix

PlotMissingData(): Plot Missing Data

PlotNumInteractionEffectsMatrix(): Plot Numerical Interaction Effects Matrix

PlotPValueComparisons(): Plot P-Value Comparisons

PlotPartialRegressionScatter(): Partial Regression Plot

PlotPhiHeatmap(): Plot Phi Correlations Between Binary Variables

PlotPointCorrelationsHeatmap(): Plot Point-Biserial Correlations Between Binary and Continuous Variables

PlotSplitViolin(): Split violin with aligned half-boxplots and a centered significance label

PlotTimeDistribution(): Plot Time Distribution

ReValueFactors(): Revalue Factors

ReplaceMissingCode(): Replace Missing Codes with NA

ReplaceMissingLabels(): Replace Missing Labels in Dataframe Columns

RevalueData(): Revalue Data

SampleData: SampleData for practicing SciDataReportR functions

SampleVariableTypes: Example Dataset: SampleVariableTypes

UnivariateRegressionTable(): Univariate Regression Table

UpdateCodebook(): Update an existing codebook based on a given dataframe

UpdateDataDictionary(): Update an existing data dictionary with new variables and types

add_r_and_stars(): Add r-values and significance stars to a correlations heatmap (pass res) Works with the list returned by PlotCorrelationsHeatmap().

calculate_pathway_results(): Calculate Pathway Results for Metabolite Comparisons

createBinaryMapping(): Create a Mapping Table for Binary Variables

createFacetLabels(): Create facet labels for ggplot2 based on variable labels in a data frame

geom_starcaption(): Add a Caption Explaining Star Annotations

getBinaryVars(): Identify Binary Variables

getCatVars(): Get Categorical Variables

getNumVars(): Get Numeric Variables

`%!in%`: Negated "in" Operator

plotForestFromTable(): Create a Forest Plot from Univariate Regression Tables

plotPCA(): Plot 3D PCA Scores

plotSigAssociations(): Plot Significant Associations

plotSigCorrelations(): Plot Significant Correlations

removeString(): Remove Strings from a Vector

reverseFactorLevels(): Reverse Levels of Categorical Factors

use_EDATemplate(): Use the EDATemplate Quarto Template

windsorize(): Windsorize