DA_custom {ChromSCape} | R Documentation |
Differential Analysis in 'One vs Rest' mode
DA_custom( affectation, counts, method, feature, block, ref, group, progress = NULL, BPPARAM = BiocParallel::bpparam() )
affectation |
An annotation data.frame with cell_id and cell_cluster columns |
counts |
Count matrix |
method |
DA method : Wilcoxon or EdgeR |
feature |
Feature tables |
block |
Blocking feature |
ref |
If de_type is custom, the reference to compare (data.frame), must be a one-column data.frame with cell_clusters or sample_id as character in rows |
group |
If de_type is custom, the group to compare (data.frame), must be a one-column data.frame with cell_clusters or sample_id as character in rows |
progress |
A shiny Progress instance to display progress bar. |
BPPARAM |
BPPARAM object for multiprocessing. See bpparam for more informations. Will take the default BPPARAM set in your R session. |
A list of results, groups compared and references