artmsVolcanoPlot {artMS} | R Documentation |
It generates a scatter-plot used to quickly identify changes
artmsVolcanoPlot(mss_results, output_name = "volcano_plot.pdf", lfc_upper = 1, lfc_lower = -1, whatPvalue = "adj.pvalue", FDR = 0.05, PDF = TRUE, decimal_threshold = 16, verbose = TRUE)
mss_results |
(data.frame or file) Selected MSstats results |
output_name |
(char) Name for the output file (don't forget the |
lfc_upper |
(numeric) log2fc upper threshold (positive value) |
lfc_lower |
(numeric) log2fc lower threshold (negative value) |
whatPvalue |
(char) |
FDR |
(numeric) False Discovery Rate threshold |
PDF |
(logical) Option to generate pdf format. Default: |
decimal_threshold |
(numeric) Decimal threshold for the pvalue. Default: 16 (10^-16) |
verbose |
(logical) |
(pdf) of a volcano plot
artmsVolcanoPlot(mss_results = artms_data_ph_msstats_results, whatPvalue = "pvalue", PDF = FALSE)