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Split Violin Plots2 years ago
Violin Plots | Custom axes labels | Median | Enchanced annotation demonstration. | Sources
Customising Violin Plots2 years ago
Plot Defaults | Plot colours: Violin Fill | Vectorisation | Plot colours: Violin Lines and Boxplot | Combined customisation | Enhanced Annotation | Labelling group size | Plotting outliers and medians
Customising Violin Plots with Formula Input2 years ago
Plot Defaults | Plot colours: Violin Fill | Vectorisation | Plot colours: Violin Lines and Boxplot | Combined customisation | Enhanced Annotation | Labelling group size | Plotting outliers and medians
An alternative to Violin Plots with Histograms2 years ago
Plot Defaults | Histogram plot | Plot colours: Histogram Fill | Vectorisation | Plot colours: Violin Lines and Boxplot | Combined customisation | Split Bihistogram Plots | Split Histogram Plots | Fine tuning with split histograms | Shading histograms
Benchmarking the Leiden algorithm with R and Python3 years ago
Benchmarking the Leiden Algorithm | Clustering with the Leiden Algorithm in R | Set up the python version to be called in R | Python implementation | Running in Python | Benchmarking the Python version with reticulate | R implementation | Running in R via reticulate and igraph | Calling python in R via reticulate | Calling C in R with igraph | Benchmarking the R version with reticulate | Large adjacency matrices | Comparing the adjacency matrix calling | Benchmarking C in R with igraph | Summary
Running the Leiden algorithm with R on multiplex graphs3 years ago
Clustering with the Leiden Algorithm on Multiplex Graphs | Set up | Usage | Multiplex graph objects | Running the Leiden algorithm in R | Fine-tuning with resolution | Fine-tuning with maximum community size | Multiplex cost functions
Overlaying base R graphics4 years ago
Introduction: Integration with base R graphics | Plotting violins with highlighted medians | Custom axes and titles | Annotated histograms
Customising Histogram Plots with Formula Input4 years ago
Plot Defaults | Plot colours: Histogram Fill | Vectorisation | Plot colours: Violin Lines and Boxplot | Combined customisation | Split Bihistogram Plots
Running the Leiden algorithm with R on adjacency matrices4 years ago
Clustering with the Leiden Algorithm in R | Install | Usage | Running the Leiden algorithm in R | Running Leiden with arguments passed to leidenalg | Running on a Seurat Object | Seurat version 2 | Seurat version 3 or later
Running the Leiden algorithm with R on Graph Objects5 years ago
Clustering with the Leiden Algorithm in R | Install | Usage | Running the Leiden algorithm in R | Running Leiden with arguments passed to leidenalg | Running on a Seurat Object | Seurat version 2 | Seurat version 3 or later
Running the Leiden algorithm with R on bipartite graphs5 years ago
Clustering with the Leiden Algorithm on Bipartite Graphs | Set up | Usage | Bipartite graph objects | Running the Leiden algorithm in R | Bipartite cost functions | Resolution Parameter | Maximum Community Size Parameter | Equivalence of cost functions
Controlling y-axis Plotting7 years ago
Controlling Violin Plot Area8 years ago
Comparing distributions