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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