sctransform: plot_model_pars – R documentation

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plot_model_pars

Plot estimated and fitted model parameters

Plot estimated and fitted model parameters

plot_model_pars(
  vst_out,
  show_theta = FALSE,
  show_var = FALSE,
  verbosity = 2,
  verbose = NULL,
  show_progress = NULL
)

`vst_out`	The output of a vst run
`show_theta`	Whether to show the theta parameter; default is FALSE (only the overdispersion factor is shown)
`show_var`	Whether to show the average model variance; default is FALSE
`verbosity`	An integer specifying whether to show only messages (1), messages and progress bars (2) or nothing (0) while the function is running; default is 2
`verbose`	Deprecated; use verbosity instead
`show_progress`	Deprecated; use verbosity instead

A ggplot object

vst_out <- vst(pbmc, return_gene_attr = TRUE)
plot_model_pars(vst_out)

Variance Stabilizing Transformations for Single Cell UMI Data

v0.3.2

GPL-3 | file LICENSE

Authors

Christoph Hafemeister [aut, cre] (<https://orcid.org/0000-0001-6365-8254>)

Initial release