API reference#
- bullkpy
- Input Output
- Pre-processing
- Tools
- Adjusted rand index
- Association
- Categorical association
- Clustering
- Cluster metrics
- Differential expression
- Negative binomial GLM differential expression
- Gene-Category association
- Gene-gene correlations
- GSEA preranked
- Leiden resolution scan
- List enrichr libraries
- Neighbors
- Obs-Category association
- Obs-Obs correlation matrix
- Pairwise posthoc
- Partial correlations
- Principal Component Analysis
- PCA loadings
- Plot Correlation heatmap
- Plot Correlation scatter
- Posthoc per gene
- Rank genes categorical
- Rank genes groups
- Score genes
- Score cell cycle genes
- Score genes from a dictionary of genes
- Top gene-gene correlations
- Top Gene-Obs correlations
- Top Obs-Obs correlations
- UMAP embedding
- UMAP graph
- Plotting
- ARI resolution heatmap
- Association heatmap
- Boxplot with statistics
- Categorical confusion
- Correlation heatmap
- Correlation plot
- Dotplot
- Dotplot association
- Gene Association
- Gene Association Volcano
- Gene Plot
- Genes vs. mitochondrial fraction
- GSEA bubbleplot
- GSEA Leading edge heatmap
- Heatmap association
- Heatmap Differential Expression
- Leading edge Jaccard heatmap
- Leading edge overlap matrix
- Library size versus genes
- MA plot
- Mitochondrial fraction vs. counts
- oncoprint
- PCA loadings bar plot
- PCA loadings heatmap
- PCA scatter plot
- PCA variance ratio
- QC by group
- QC metrics
- QC pairplot
- QC scatter panel
- Rankplot
- Rankplot association
- Rank genes groups
- Rank genes groups dotplot
- Sample distances
- UMAP plots
- Violin plots
- Volcano plot
- Volcano for categorial comparisons