Description Usage Arguments Details Author(s) Examples
Creates a pdf output file with a volcano plot out of the results from SeqFeatRs assocpoint.
1 2 3 | volcanoplot(path_to_file_assocpoint_csv_result,
save_name_pdf, p_values_pos, odds_pos, pos_pos,
level_of_sig_p, level_of_sig_odds)
|
path_to_file_assocpoint_csv_result |
csv file with results from SeqFeatRs assocpoint. For reference see example file. |
save_name_pdf |
name of file to which results are saved in pdf format. |
p_values_pos |
column number with p-values. |
odds_pos |
column number with odds ratios. |
pos_pos |
column number with positions. |
level_of_sig_p |
level of significance p values. |
level_of_sig_odds |
level of significance odds ratios. |
Plots log$_10$ Odds ratios versus -log$_10$ p-values and annotates the dots with sequence positions.
Bettina Budeus
1 2 3 4 5 6 7 8 9 10 11 12 | #Input file
assocpoint_result <- system.file("extdata", "assocpoint_results.csv", package="SeqFeatR")
#Usage
volcanoplot(
path_to_file_assocpoint_csv_result=assocpoint_result,
save_name_pdf="volcano_plot.pdf",
p_values_pos = 3,
odds_pos = 6,
pos_pos = 1,
level_of_sig_p = 0.05,
level_of_sig_odds = 1)
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