compute_mean_expr: Comptue mean expression for an 'expression_data' object

In b-coli/ICITools: R Implementation of Tools for Calculating the Index of Cell Identity

Description

Comptue mean expression for an 'expression_data' object

Usage

compute_mean_expr(expression_data, method = "Efroni", ...)

Arguments

expression_data	data frame (or tibble) containing the following columns for a single locus Expression (the normalized expression value, not log-transformed) Cell_Type (the cell type from which the expression data came from) binsize (optional; required if 'method = "Efroni"')
method	Which method to use when computing the mean. Defaults to "Efroni", but can be another function. If set to something other than "Efroni", a function, or "median", defaults to computing the median expression for each cell type. Must return one or more summarized expression values for each cell type.
...	Parameters to be supplied to the function defined in 'method'.

Value

Summarized expression values for each cell type.

References

Ifroni, E., Ip, PL., Nawy, T., Mello, A., Birnbaum, KD. 2015. "Quantification of cell identity from single-cell gene expression profiles". Genome Biology 16(9)

Birnbaum, KD. and Kussell, E. 2011. "Measuring cell identity in noisy biological systems". Nucl. Acids. Res. 39(21)

b-coli/ICITools documentation built on Dec. 27, 2021, 7:40 a.m.