fold_change {structToolbox} | R Documentation |
Fold change is the relative change in mean (or non-parametric equivalent) intensities of a feature between all pairs of levels in a factor.
fold_change( alpha = 0.05, factor_name, paired = FALSE, sample_name = character(0), threshold = 2, control_group = character(0), method = "geometric", ... )
alpha |
(numeric) The p-value cutoff for determining significance. The default is |
factor_name |
(character) The name of a sample-meta column to use. |
paired |
(logical) Paired fold change. Allowed values are limited to the following:
The default is |
sample_name |
(character) The name of a sample_meta column containing sample identifiers for paired sampling. The default is |
threshold |
(numeric) The fold change threshold for labelling features as significant. The default is |
control_group |
(character) The level name of the group used in the denominator (where possible) when computing fold change. The default is |
method |
(character) Fold change method. Allowed values are limited to the following:
The default is |
... |
Additional slots and values passed to |
A fold_change
object.
Price RM, Bonett DG (2002). “Distribution-Free Confidence Intervals for Difference and Ratio of Medians.” Journal of Statistical Computation and Simulation, 72(2), 119-124.
D = MTBLS79_DatasetExperiment() M = fold_change(factor_name='Class') M = model_apply(M,D)