warning_DA {ChromSCape} | R Documentation |
Warning for differential_analysis_scExp
warning_DA(scExp, de_type, method, qval.th, cdiff.th, block, group, ref)
scExp |
A SingleCellExperiment object containing consclust with selected number of cluster. |
de_type |
Type of comparisons. Either 'one_vs_rest', to compare each cluster against all others, or 'pairwise' to make 1 to 1 comparisons. ('one_vs_rest') |
method |
Wilcoxon or edgerGLM |
qval.th |
Adjusted p-value threshold. (0.01) |
cdiff.th |
Fold change threshold. (1) |
block |
Use batches as blocking factors ? |
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 |
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 |
Warnings or Errors if the input are not correct