fitGenewiseNBModel: A summary fit function for Genewise Negative Binomial Model...

In beyondpie/mssc: Multiple-sample differential analysis for single-cell RNA sequencing data

Description

A summary fit function for Genewise Negative Binomial Model NOTE previous name: fit_mgsnb

Usage

fitGenewiseNBModel(
  cnt,
  s,
  cond,
  ind,
  default_mu = 0,
  default_r = 20,
  min_var = 4,
  min_varofcond = 0.25,
  min_varofind = 0.25,
  min_tau2 = 0.25
)

Arguments

cnt	matrix, count matrix size of ngene by ncell
s	numeric vector, length of ncell, normalzing/scaling factor for cells
cond	integer vector, length of ncell, which cond the cell belongs to, start from 1.
ind	integer vector, length of ncell, which individuals cells belong to, start from 1.
default_mu	double, default is 0.0
default_r	double, default is 20.
min_var	double, default is 4.0
min_varofcond	double, default is 0.25
min_varofind	double, default is 0.25
min_tau2	double, default is 0.25

Value

list of four elements

• mgsnb: matrix, ngene by 2 + ncond + nind

• mu: output of fitGeneGlobalMeanPriorParams

• logr: output of fitGeneGlobalMeanPriorParams

• cond: output of fitGenewiseCondPriorParams

• ind: output of fitGenewiseBatchPriorParams

beyondpie/mssc documentation built on Jan. 8, 2022, 1:30 p.m.