splatPopEstimateEffectSize: Estimate eQTL Effect Size parameters
In splatter: Simple Simulation of Single-cell RNA Sequencing Data

Description Usage Arguments Details Value

Estimate rate and shape parameters for the gamma distribution used to simulate eQTL (eSNP-eGene) effect sizes.

1	splatPopEstimateEffectSize(params, eqtl)

`params`	SplatPopParams object containing parameters for the simulation of the mean expression levels for the population. See `SplatPopParams` for details.
`eqtl`	data.frame with all or top eQTL pairs from a real eQTL analysis. Must include columns: gene_id, pval_nominal, and slope.

Parameters for the gamma distribution are estimated by fitting the top eSNP- eGene pair effect sizes using fitdist. The maximum goodness-of-fit estimation method is used to minimise the Cramer-von Mises distance. This can fail in some situations, in which case the method of moments estimation method is used instead.

params object with estimated values.

splatter documentation built on Dec. 3, 2020, 2:01 a.m.