Theme Elements | Rounded rectangles | Alternating grid bands | Minimal plot backgrounds | Geometric Layers | Histograms based on hist() | X-splines | Continuous-color segments | Shape-like point layers | Facets and Plot Data | Updating facet labels | Extracting mapped data | Legends and Fonts | Summary

Overview | Supported Data | Supported Analyses | Learn More | Citation | Getting Help

Vignette | Citation | Need helps?

Introduction | Gap plot | Feature 1: Compatible with ggplot2 | Feature 2: Multiple break-points are supported | Feature 3: Simultaneous breaks on both x and y axes | Feature 4: Axis break symbols | Feature 5: Zoom in or zoom out of subplots | Feature 6: Support reverse scale | Feature 7: Compatible with scale transform functions | Feature 8: Compatible with coord_flip | Feature 9: Compatible with facet_grid and facet_wrap | Feature 10: Compatible with legends | Feature 11: Supports all plot labels | Feature 12: Allows setting tick labels for subplots | Feature 13: Compatible with dual axis | Feature 14: Compatible with patchwork | Wrap plot | Cut plot | Adjust the amount of space between subplots | Place legend at any position | Note | FAQ

Retrieving basic information | Retrieving publications | Retrieving citation data | Comparing scholars | Visualizing and comparing network of coauthors | Formatting publications for CV | APA style | Numbering format

Aesthetic mapping | Geometric layer | Line, segment and errorbar | Bar plot | Boxplot and histogram | Significance annotations | Heatmap | Supported layers | Setting labels | Theme | Supported themes | Scale | Supported scales | Scales for pch, lty and cex | Legend | Facet | Using existing code with plotbb

Basic Usage | Deconstructing Layers | 1. The Base Plot | 2. Customizing Edges | 3. Customizing Edge Labels | 4. Customizing Nodes (SNFG Symbols) | 5. Adding Text Labels | Putting It All Together: A Highly Customized Plot | Motif Highlighting

Simple Network Visualization | Node color and size | Node label | Edge | Layouts | Circular Layout | Linear Layout | Network with external data | Network with pies | Category-Item association plot

Abstract | Citation | Introduction | Data profiling | Coverage plot | Profile of data in specific regions | Profile of one sample of one reference region | Visualization of base modification | Visualization of gene track | Visualization of motif | Peak Annotation | Visualize Genomic Annotation | Visualize distribution of TF-binding loci relative to TSS | Functional enrichment analysis | ChIP peak data set comparison | ChIP peak annotation comparision | Functional profiles comparison | Overlap of peaks and annotated genes | Statistical testing of ChIP seq overlap | Shuffle genome coordination | Peak overlap enrichment analysis | Data Mining with ChIP seq data deposited in GEO | GEO data collection | Download GEO ChIP data sets | Overlap significant testing | Need helps? | Session Information | References

Vignette | Citation | Need help?

Overview | Supported Analysis | Supported ontologies/pathways | Visualization | Vignette | Citation | Need helps?

special note for windows users | meme | The grammar of meme | meme_save: a meme version of ggsave | plot method | + method | multi-language support | grid support | ggplot2 support | cowplot support | font support

Install package | Introduction | Importing MSA data | Basic use: MSA Visualization | Color Schemes | Font | MSA Annotation | Learn more | Session Info

Abstract | Citation | Introduction | ChIP profiling | ChIP peaks coverage plot | Profile of ChIP peaks binding to TSS regions | Heatmap of ChIP binding to TSS regions | Average Profile of ChIP peaks binding to TSS region | Profile of ChIP peaks binding to different regions | Binning method for profile of ChIP peaks binding to TSS regions | Profile of ChIP peaks binding to body regions | Profile of ChIP peaks binding to TTS regions | Peak Annotation | Visualize Genomic Annotation | Visualize distribution of TF-binding loci relative to TSS | Functional enrichment analysis | ChIP peak data set comparison | Profile of several ChIP peak data binding to TSS region | Average profiles | Peak heatmaps | Profile of several ChIP peak data binding to body region | ChIP peak annotation comparision | Functional profiles comparison | Overlap of peaks and annotated genes | Statistical testing of ChIP seq overlap | Shuffle genome coordination | Peak overlap enrichment analysis | Data Mining with ChIP seq data deposited in GEO | GEO data collection | Download GEO ChIP data sets | Overlap significant testing | Need helps? | Session Information | References

Introduction | Installation | Demonstration | Session information

Introduction | Installation | Run the shiny application | Interactive Web Interface | Tree structure exploration panel | Sample date panel | Temporal signal panel | Phylogenetic signal panel

Introduction | hclust and dendrogram objects | linkage object | agnes, diana and twins objects | pvclust object | Session information

Install package | Introduction | Getting Started Quickly | Supported Analysis | Case Study | Data input | Run example | Annotation database | Session Information

Introduction | Download stats of CRAN packages | Download stats of Bioconductor packages | Shiny apps

Interface for dimensionality reduction methods | Visualization

Download sequences | Genbank | File conversion | fasta and phylip conversion | interleaved and sequential format conversion | Sequence manipulation | Bugs/Feature requests | Session info | References

Vignette | Citation | Need helps?

Scatter Pie plot | Session info

Vignette | Citation | Need helps?

shadow text grob: shadowtextGrob() and grid.shadowtext() | ggplot2 layer: geom_shadowtext()

grid | ggplot2 | Align plots