plot_rawdata¶
Visualization of the sequence (genotypes) data.
Description¶
This function aims to plot the sequence data. The horizontal axis represents the sampling sites, and the vertical axis represents the sequence values.
Usage¶
plot_rawdata(location, X, color = None, pch = 4, cex = 0.9, show_legend = True,
title = None, grid = False, figsize = (8, 6))
Parameters¶
This part shows the meanings and data types of parameters. Users can check the table below to plot a customizable sequence figure.
Parameter |
Description |
|---|---|
location |
list, defines the sampling sites of the sequence (genotypes) data. |
X |
matrix, represents the sequence data with the number of rows equal to the number of samples. |
color |
str, a specification for the default plotting color. |
pch |
float, either an integer specifying a symbol or a single character to be used as the default in plotting points. |
cex |
float, a numerical value giving the amount by which plotting text and symbols should be magnified relative to the default. |
show_legend |
bool, whether to show the legend of the plot. When you plot many sequnces, it is recommended to set the option to False. |
title |
str, specifies the title of the plot. If set to a string, the plot will have that title; if None, no title is displayed. |
grid |
bool, a boolean for displaying grid lines. Set to True to show them, aiding in data value estimation. |
figsize |
tuple, a tuple defining the figure’s width and height in inches. Adjust these values to change the figure’s size. |
Value¶
The function plot_rawdata plots the figure of the sequence (genotypes) data. Here are two example graphs for this function:
Examples¶
Here is a quick example for using this function:
from GENetLib.sim_data import sim_data_func
from GENetLib.plot_gene import plot_rawdata
seed = 123
func_survival = sim_data_func(3, 30, 'Survival', seed = seed)
location = list(func_survival['location'])
X = func_survival['X']
plot_rawdata(location, X, show_legend = True)