computeVPC.CP | Calculate the compound Poisson (CP) variance partition... |
computeVPC.NB | Calculate the negative binomial (NB) variance partition... |
fitComputeVPC.lmer | Fit linear mixed models (LMM) and compute the VPC values for... |
fit.CP | Fit compound Poisson mixed effect models (CPMM) for one or... |
fit.NB | Fit negative binomial mixed models (NBMM) for one or more... |
getBootCI | Compute variance partition coefficition (VPC) confidence... |
getReadMatrix.CP | Simulate a read matrix from compound Poisson mixed effect... |
getReadMatrix.NB | Simulate a count matrix from negative binomial mixed effect... |
para_cp | Parameter matrix obtained from simData by fitting CPMM. |
para_nb | Parameter matrix obtained from simData by fitting NBMM. |
simData | A simulated sequencing dataset. |
simData_voom | Voom transformed version of simData. |
simData_vst | Variance stabilize transformed version of simData. |
strains | List of strain names for the samples. |
weights_voom | Weights used in the voom transformation. |
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