splatEstDropout: Estimate Splat dropout parameters

Description Usage Arguments Details Value

View source: R/splat-estimate.R

Description

Estimate the midpoint and shape parameters for the logistic function used when simulating dropout.

Usage

1
splatEstDropout(norm.counts, params)

Arguments

norm.counts

library size normalised counts matrix.

params

SplatParams object to store estimated values in.

Details

Logistic function parameters are estimated by fitting a logistic function to the relationship between log2 mean gene expression and the proportion of zeros in each gene. See nls for details of fitting. Note this is done on the experiment level, more granular (eg. group or cell) level dropout is not estimated.

Value

SplatParams object with estimated values.


Oshlack/splatter documentation built on Aug. 19, 2018, 9:06 a.m.