contrast_the_group_to_the_rest {celaref} | R Documentation |
Internal function to calculate differential expression within an experiment between a specified group and cells not in that group.
contrast_the_group_to_the_rest(dataset_se, the_group, pvalue_threshold = 0.01)
dataset_se |
Datast summarisedExperiment object. |
the_group |
group to test |
pvalue_threshold |
Default = 0.01 |
This function should only be called by
contrast_each_group_to_the_rest
(which can be passed a single group name if desired). Else 'pofgenes' will
not be defined.
MAST is supplied with log2(counts + 1.1), and zlm called with model '~ TvsR + pofgenes' . The p-values reported are from the hurdle model. FDR is with default fdr/BH method.
A tibble, the within-experiment de_table (differential expression table), for the group specified.
contrast_each_group_to_the_rest