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Table 1 Input parameters for the Splat simulation model

From: Splatter: simulation of single-cell RNA sequencing data

Name Symbol Description
Mean shape \( \upalpha \) Shape parameter for the mean gene expression gamma distribution
Mean rate \( \upbeta \) Rate parameter for the mean gene expression gamma distribution
Library size location \( {\upmu}^{\mathrm{L}} \) Location parameter for the library size log-normal distribution
Library size scale \( {\upsigma}^{\mathrm{L}} \) Scale parameter for the library size log-normal distribution
Outlier probability \( {\uppi}^{\mathrm{O}} \) Probability that a gene is an expression outlier
Outlier location \( {\upmu}^{\mathrm{O}} \) Location parameter for the expression outlier factor log-normal distribution
Outlier scale \( {\upsigma}^{\mathrm{O}} \) Scale parameter for the expression outlier factor log-normal distribution
Common BCV \( \upphi \) Common BCV dispersion across all genes
BCV degrees of freedom \( \mathrm{df} \) Degrees of freedom for the BCV inverse chi-squared distribution
Dropout midpoint \( {\mathrm{x}}_0 \) Midpoint for the dropout logistic function
Dropout shape \( \mathrm{k} \) Shape of the dropout logistic function