Package index • ggforge

Basic Statistical Plots

Functions for creating basic statistical visualizations

ScatterPlot(): Scatter Plot
LinePlot(): Line Plot
BarPlot(): Bar Plot
BoxPlot(): Box Plot
ViolinPlot(): Violin Plot
BeeswarmPlot(): Beeswarm Plot
DensityPlot(): Density Plot
JitterPlot(): Jitter Plot
AreaPlot(): Area Plot
Histogram(): Histogram
QQPlot(): QQ Plot
TrendPlot(): Trend Plot
RidgePlot(): Ridge Plot
DotPlot(): Dot Plot / Scatter Plot
LollipopPlot(): Lollipop Plot
SplitBarPlot() WaterfallPlot(): Split Bar Plot (Waterfall Plot)
DumbbellPlot(): Dumbbell Plot
StreamGraph(): Stream Graph (River Plot)
TreemapPlot(): Treemap Plot
ParallelCoordPlot(): Parallel Coordinates Plot
WafflePlot(): Waffle Plot
TimelinePlot(): Timeline Plot

Enrichment & Pathway Analysis

Functions for visualizing enrichment and pathway analysis results

EnrichMap(): Enrichment Map
EnrichNetwork(): Enrichment Network
GSEASummaryPlot(): GSEA Summary Plot
GSEAPlot(): GSEA Plot

Single-Cell & Spatial Analysis

Functions for single-cell and spatial transcriptomics

DimPlot(): Dimension Reduction Plot
FeatureDimPlot(): Feature Dimension Reduction Plot
VelocityPlot(): Cell Velocity Plot
SpatImagePlot() SpatMasksPlot() SpatShapesPlot() SpatPointsPlot(): Spatial Plotting Functions for ggforge
TrajectoryPlot(): Trajectory Plot (Pseudotime)
StackedViolinPlot(): Stacked Violin Plot

Genomics

Functions for genomics data visualization

VolcanoPlot(): Volcano Plot
ManhattanPlot(): Manhattan Plot
VennDiagram(): Venn Diagram
UpsetPlot(): Upset Plot

Clinical & Prediction

Functions for survival, clinical prediction, and model evaluation

KMPlot(): Kaplan-Meier Survival Plot
CoxPlot(): Cox Proportional-Hazards Model Visualization
ROCCurve(): ROC Curve Plot
NomogramPlot(): Nomogram Plot
CalibrationPlot(): Calibration Plot
DecisionCurvePlot(): Decision Curve Analysis Plot

Networks & Relationships

Functions for network and relationship visualization

CorPlot(): Correlation Plot
CorPairsPlot(): Pairwise Correlation Matrix Plot
ChordPlot() CircosPlot(): Chord / Circos Plot
SankeyPlot() AlluvialPlot(): Sankey / Alluvial Plot
Network(): Network Plot

Specialized Plots

Specialized visualization functions

Heatmap(): Heatmap
RadarPlot() SpiderPlot(): Radar Plot / Spider Plot
PieChart(): Pie Chart
RingPlot(): Ring Plot
WordCloudPlot(): Word Cloud Plot
RarefactionPlot(): Rarefaction Plot
ClustreePlot(): Clustree Plot
ChordPlot() CircosPlot(): Chord / Circos Plot
SplitBarPlot() WaterfallPlot(): Split Bar Plot (Waterfall Plot)
DendrogramPlot(): Dendrogram Plot
SunburstPlot(): Sunburst Plot (Hierarchical Ring)

Earth & Environmental

Functions for earth science, geography, and environmental visualization

ContourPlot(): Contour Plot
TernaryPlot(): Ternary Plot
PolarPlot() WindRosePlot(): Polar Plot / Wind Rose
MapPlot(): Map Plot (Choropleth / Point Map)

Meta-Analysis & Agreement

Functions for meta-analysis and method agreement

ForestPlot(): Forest Plot (General Purpose)
FunnelPlot(): Funnel Plot
BlandAltmanPlot(): Bland-Altman Plot (Agreement Plot)

Ecology & Evolution

Functions for ecological and evolutionary visualization

OrdinationPlot(): Ordination Plot (NMDS / PCoA / RDA / CCA Biplot)
PhyloTreePlot(): Phylogenetic Tree Plot
RankAbundancePlot(): Rank-Abundance Plot (Whittaker Plot)

Physics & Engineering

Functions for physics and engineering visualization

QuiverPlot(): Quiver Plot (Vector Field)
StreamlinePlot(): Streamline Plot

3D & Interactive

Interactive and 3D visualization functions

Scatter3D(): 3D Scatter Plot
Surface3D(): 3D Surface Plot
ggforge_interactive(): Convert ggplot to Interactive Plotly

Machine Learning

Functions for ML model evaluation visualization

ConfusionMatrixPlot(): Confusion Matrix Plot

Themes & Palettes

Theme and color palette functions

themes: ggforge Theming System
theme_ggforge(): Main ggforge Theme
theme_ggforge_grid(): ggforge Theme for Grid-based Plots (Heatmap-like)
theme_minimal_axes(): Minimal Theme
palettes: Color Palette System for ggforge
get_palette(): Get colors from palette
show_palettes(): Show available palettes

Example Data

Example datasets for demonstration

dim_example: Example Dimensionality Reduction Data
enrich_example: Example Enrichment Analysis Data
enrich_multidb_example: Example Multi-Database Enrichment Data
gsea_example: Example GSEA Results
palette_list: Color Palette Collection
words_excluded: Excluded Words for Text Analysis

Utilities

Utility functions

ggforge_gallery(): ggforge Plot Gallery
ggforge_agent_install(): Install ggforge Agent Integration
ggforge_agent_uninstall(): Uninstall ggforge Agent Integration
var_type(): Annotate variable with explicit type