Generate a report for differential expression analysis

Generate a report for differential expression analysis

report_de(
  res,
  logFC_threshold = 0.25,
  padj_cutoff = 0.05,
  n_label = 5,
  report_folder_path = getwd(),
  report_file = "de_report_scflow"
)

Arguments

res

Differential expression result table from perform_de() function.

logFC_threshold

fold change up/down threshold.

padj_cutoff

the adjusted pvalue cutoff threshold.

n_label

number of genes to be labelled in the volcano plot.

report_folder_path

folder path to save the report.

report_file

filename for report (without an extension).

See also

Other differential gene expression: .filter_sce_genes_for_de(), .generate_model_from_vars(), .perform_de_with_mast(), .preprocess_sce_for_de(), perform_de(), pseudobulk_sce(), volcano_plot()