Heritability of Gene Expression for Next-Generation Sequencing

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Documentation for package ‘HeritSeq’ version 1.0.2

• 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.