differential_splicing()
Perform pairwise differential splicing analysis.
make_differential_splicing_plot()
Make sashimi-esque plot with ggplot2
dirichlet_multinomial_anova_mc()
Dirichlet multinomial GLM likelihood ratio test for a single cluster
get_intron_meta()
Make a data.frame of meta data about the introns
map_clusters_to_genes()
Work out which gene each cluster belongs to. Note the chromosome names used in the two inputs must match.
leaf_cutter_effect_sizes()
Per intron effect sizes
cluster_results_table()
Parse output of differential_splicing
add_chr()
Adding "chr" if it's not present
beta_real()
Convert K-1 representation of parameters to real
bh()
Benjamini-Hochberg FDR correction
logistic()
logistic (sigmoid) function
multiqq()
Plot multiple qq plot for p-values
dirichlet_multinomial_anova()
Dirichlet multinomial GLM likelihood ratio test for a single cluster (single overdispersion parameter)
dirichlet_multinomial_glm()
Dirichlet multinomial GLM (single overdispersion parameter)
betaBinomialGLM()
Beta binomial GLM likelihood ratio testing