Table 1 Models and parameters for synthetic data generation
ℓi∼eunif(5,10) | length of gene i |
\(\alpha _{i} \sim \mathcal {N}(0,1)\) | other log scaling factors of gene i |
βi=0 | log-fold change for non-DE genes |
\(\beta _{i} \sim \mathcal {N}(2,1)\) | log-fold change for up-regulated DE genes |
\(\beta _{i} \sim \mathcal {N}(-2,1)\) | log-fold change for down-regulated DE genes |
\(x_{j} \sim \mathcal {N}(0,1)\) | covariates for sample j |
Nj∼unif(2,3)×106 | library size of sample j |
\(d_{j} \sim \mathcal {N}(0, 1)\) | other log scaling factors of sample j |
\(\mu _{ij} = N_{j} \frac {\ell _{i}}{\sum _{i=1}^{m} \ell _{i}} \mathrm {e}^{\alpha _{i} + \beta _{i} x_{j} + d_{j}}\) | mean read counts of gene i in sample j |