run_glmeiv_given_precomputations: Run GLM-EIV given precomputations

In timothy-barry/glmeiv: Implements the GLM-EIV model and method

Run GLM-EIV given precomputations

Description

Runs a full GLM-EIV given mRNA and gRNA precomputations, as outputted by run_glmeiv_precomputation function.

Usage

run_glmeiv_given_precomputations(
  m,
  g,
  m_precomp,
  g_precomp,
  covariate_matrix,
  m_offset,
  g_offset,
  n_em_rep,
  pi_guess_range,
  m_perturbation_guess_range,
  g_perturbation_guess_range,
  ep_tol = 1e-04
)

Arguments

m	mRNA counts
g	gRNA counts
m_precomp	mRNA precomputation list, as outputted by run_glmeiv_precomputation
g_precomp	gRNA precomputation list, as outputted by run_glmeiv_precomputation
covariate_matrix	the matrix of covariates; NULL if there are no covariates.
m_offset	offsets for m
g_offset	offsets for g
n_em_rep	number of EM reps to run on reduced GLM-EIV model
pi_guess_range	range of values over which to sample pi
m_perturbation_guess_range	range of values over which to sample m_perturbation
g_perturbation_guess_range	range of values over which to sample g_perturbation
ep_tol	(optional) EM convergence threshold
fam_str	string describing family; currently "poisson" or "Negative Binomial" supported

Value

a fitted GLM-EIV model

timothy-barry/glmeiv documentation built on Jan. 30, 2024, 3:46 p.m.