create.stats: create.stats - perform statistical analysis and generate an...

In ImmuneDynamics/Spectre: High-dimensional cytometry and imaging analysis.

create.stats - perform statistical analysis and generate an output data.table

Description

This function performs statistical analysis and generates an output data.table

Usage

create.stats(
  dat,
  use.cols,
  sample.col,
  group.col,
  comparisons,
  variance.test = "kruskal.test",
  pairwise.test = "wilcox.test",
  corrections = "fdr"
)

Arguments

dat	NO DEFAULT. A data.table containing summary data (samples vs features)
use.cols	NO DEFAULT. Columns (i.e. features) to use for statistical analysis.
sample.col	NO DEFAULT. The column denoting sample names.
group.col	NO DEFAULT. The column denoting experimental group names.
comparisons	NO DEFAULT. A list of pairwise comparisons between samples. E.g. list(c('Group A', 'Group B'), c('Group B', 'Group C')).
variance.test	DEFAULT = 'kruskal.test'. Currently the only option
pairwise.test	DEFAULT = 'wilcox.test'. Currently the only option
corrections	DEFAULT = 'fdr' (false discovery rate). Currently the only option

Author(s)

Thomas M Ashhurst, [e-mail]

References

https://github.com/ImmuneDynamics/Spectre.

ImmuneDynamics/Spectre documentation built on Nov. 12, 2023, 8:12 a.m.