# Heritability of Gene Expression for Next-Generation Sequencing

## Documentation for package ‘HeritSeq’ version 1.0.0

- DESCRIPTION file.

## Help Pages

computeVPC.CP | Calculate the compound Poisson (CP) variance partition coefficient (VPC) for one or more features.
computeVPC.NB | Calculate the negative binomial (NB) variance partition coefficient (VPC) for one or more features.
fit.CP | Fit compound Poisson mixed effect models (CPMM) for one or more features.
fit.NB | Fit negative binomial mixed models (NBMM) for one or more features.
fitComputeVPC.lmer | Fit linear mixed models (LMM) and compute the VPC values for one or more features.
getBootCI | Compute variance partition coefficition (VPC) confidence intervals (CI) for one or more features.
getReadMatrix.CP | Simulate a read matrix from compound Poisson mixed effect models (CPMM).
getReadMatrix.NB | Simulate a count matrix from negative binomial mixed effect models (NBMM).
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.