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 |