RStudio add-in to make plots interactively with ggplot2

R package that helps create and export ggplot2 charts in the style used by the BBC News data team

'ggplot2' Based Publication Ready Plots

Themes for ggplot2.

A geom for ggplot to create bump plots

Summarize, Analyze and Visualize MAF files from TCGA or in-house studies.

Fast Gene Set Enrichment Analysis

Make sankey, alluvial and sankey bump plots in ggplot

Genome data visualizations

Everything is Linkable

Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.

Gene set scoring for single-cell data

Create timecourse "fish plots" that show changes in the clonal architecture of tumors

Algorithm to implement Fraction and Copy number Estimate from Tumor/normal Sequencing.

Inferring and visualizing clonal evolution in multi-sample cancer sequencing

deconstructSigs

AnnData interoperability in R

Code for reproducing the analysis in Gavish et al. "The transcriptional hallmarks of intra-tumor heterogeneity across a thousand tumors".

Associated code to the manuscript "Characterization of immune cell populations in the tumor microenvironment of colorectal cancer using high definition spatial profiling"

Talk: How to display data badly

Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer

R data package for pre-compiled somatic mutations from TCGA cohorts and CCLE

Pretty plots using pure base graphics in R

A set of functions to visualise genotypes based on a VCF

SIB course on single cell transcriptomics by mostly using the Seurat pipeline

R pkg for Hierarchical Dirichlet Process

Somatic copy variant caller (CNV) for next generation sequencing

Creating waffle charts in a ggplot friendly way