1609384065
Beautiful Plots with Python and Seaborn
The guide to plotting data with Python and Seaborn
Data visualization is a technique that allows data scientists to convert raw data into charts and plots that generate valuable insights. Charts reduce the complexity of the data and make it easier to understand for any user.
There are many no-code tools to perform data visualization, such as Tableau, Power BI, ChartBlocks, and more. They are very powerful tools, and they have their audience. However, when working with raw data that requires transformation and a good playground for data, Python is an excellent choice.
Though more complicated — as it requires programming knowledge — Python allows you to perform any manipulation, transformation, and visualization of your data. It is ideal for data scientists.
There are many reasons why Python is the best choice for data science, but one of the most important ones is its ecosystem of libraries. Many great libraries are available for Python to work with data, like numpy, pandas, matplotlib, tensorflow, etc.
Matplotlib is probably the most recognized plotting library out there, available for Python and other programming languages like R. Its level of customization and operability established it in the first place. However, some actions or customizations can be hard to deal with when using it.
Developers created a new library based on matplotlib called seaborn. Seaborn is as powerful as matplotlib while also providing an abstraction to simplify plots and bring some unique features.
In this article, we will focus on how to work with seaborn to create best-in-class plots. If you want to follow along, you can create your own project or simply check out my seaborn guide project on GitHub.
#data-science #artificial-intelligence #data-visualization #python #seaborn
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Exploratory Data Analysis(EDA) with Python
Exploratory Data Analysis Tutorial | Basics of EDA with Python
Exploratory data analysis is used by data scientists to analyze and investigate data sets and summarize their main characteristics, often employing data visualization methods. It helps determine how best to manipulate data sources to get the answers you need, making it easier for data scientists to discover patterns, spot anomalies, test a hypothesis, or check assumptions. EDA is primarily used to see what data can reveal beyond the formal modeling or hypothesis testing task and provides a better understanding of data set variables and the relationships between them. It can also help determine if the statistical techniques you are considering for data analysis are appropriate or not.
🔹 Topics Covered:
00:00:00 Basics of EDA with Python
01:40:10 Multiple Variate Analysis
02:30:26 Outlier Detection
03:44:48 Cricket World Cup Analysis using Exploratory Data Analysis
Learning the basics of Exploratory Data Analysis using Python with Numpy, Matplotlib, and Pandas.
What is Exploratory Data Analysis(EDA)?
If we want to explain EDA in simple terms, it means trying to understand the given data much better, so that we can make some sense out of it.
We can find a more formal definition in Wikipedia.
In statistics, exploratory data analysis is an approach to analyzing data sets to summarize their main characteristics, often with visual methods. A statistical model can be used or not, but primarily EDA is for seeing what the data can tell us beyond the formal modeling or hypothesis testing task.
EDA in Python uses data visualization to draw meaningful patterns and insights. It also involves the preparation of data sets for analysis by removing irregularities in the data.
Based on the results of EDA, companies also make business decisions, which can have repercussions later.
- If EDA is not done properly then it can hamper the further steps in the machine learning model building process.
- If done well, it may improve the efficacy of everything we do next.
In this article we’ll see about the following topics:
- Data Sourcing
- Data Cleaning
- Univariate analysis
- Bivariate analysis
- Multivariate analysis
1. Data Sourcing
Data Sourcing is the process of finding and loading the data into our system. Broadly there are two ways in which we can find data.
- Private Data
- Public Data
Private Data
As the name suggests, private data is given by private organizations. There are some security and privacy concerns attached to it. This type of data is used for mainly organizations internal analysis.
Public Data
This type of Data is available to everyone. We can find this in government websites and public organizations etc. Anyone can access this data, we do not need any special permissions or approval.
We can get public data on the following sites.
- https://data.gov
- https://data.gov.uk
- https://data.gov.in
- https://www.kaggle.com/
- https://archive.ics.uci.edu/ml/index.php
- https://github.com/awesomedata/awesome-public-datasets
The very first step of EDA is Data Sourcing, we have seen how we can access data and load into our system. Now, the next step is how to clean the data.
2. Data Cleaning
After completing the Data Sourcing, the next step in the process of EDA is Data Cleaning. It is very important to get rid of the irregularities and clean the data after sourcing it into our system.
Irregularities are of different types of data.
- Missing Values
- Incorrect Format
- Incorrect Headers
- Anomalies/Outliers
To perform the data cleaning we are using a sample data set, which can be found here.
We are using Jupyter Notebook for analysis.
First, let’s import the necessary libraries and store the data in our system for analysis.
#import the useful libraries.
import numpy as np
import pandas as pd
import seaborn as sns
import matplotlib.pyplot as plt
%matplotlib inline
# Read the data set of "Marketing Analysis" in data.
data= pd.read_csv("marketing_analysis.csv")
# Printing the data
dataNow, the data set looks like this,
If we observe the above dataset, there are some discrepancies in the Column header for the first 2 rows. The correct data is from the index number 1. So, we have to fix the first two rows.
This is called Fixing the Rows and Columns. Let’s ignore the first two rows and load the data again.
#import the useful libraries.
import numpy as np
import pandas as pd
import seaborn as sns
import matplotlib.pyplot as plt
%matplotlib inline
# Read the file in data without first two rows as it is of no use.
data = pd.read_csv("marketing_analysis.csv",skiprows = 2)
#print the head of the data frame.
data.head()Now, the dataset looks like this, and it makes more sense.
Dataset after fixing the rows and columns
Following are the steps to be taken while Fixing Rows and Columns:
- Delete Summary Rows and Columns in the Dataset.
- Delete Header and Footer Rows on every page.
- Delete Extra Rows like blank rows, page numbers, etc.
- We can merge different columns if it makes for better understanding of the data
- Similarly, we can also split one column into multiple columns based on our requirements or understanding.
- Add Column names, it is very important to have column names to the dataset.
Now if we observe the above dataset, the customerid column has of no importance to our analysis, and also the jobedu column has both the information of job and education in it.
So, what we’ll do is, we’ll drop the customerid column and we’ll split the jobedu column into two other columns job and education and after that, we’ll drop the jobedu column as well.
# Drop the customer id as it is of no use.
data.drop('customerid', axis = 1, inplace = True)
#Extract job & Education in newly from "jobedu" column.
data['job']= data["jobedu"].apply(lambda x: x.split(",")[0])
data['education']= data["jobedu"].apply(lambda x: x.split(",")[1])
# Drop the "jobedu" column from the dataframe.
data.drop('jobedu', axis = 1, inplace = True)
# Printing the Dataset
dataNow, the dataset looks like this,
Dropping Customerid and jobedu columns and adding job and education columns
Missing Values
If there are missing values in the Dataset before doing any statistical analysis, we need to handle those missing values.
There are mainly three types of missing values.
- MCAR(Missing completely at random): These values do not depend on any other features.
- MAR(Missing at random): These values may be dependent on some other features.
- MNAR(Missing not at random): These missing values have some reason for why they are missing.
Let’s see which columns have missing values in the dataset.
# Checking the missing values
data.isnull().sum()The output will be,
As we can see three columns contain missing values. Let’s see how to handle the missing values. We can handle missing values by dropping the missing records or by imputing the values.
Drop the missing Values
Let’s handle missing values in the age column.
# Dropping the records with age missing in data dataframe.
data = data[~data.age.isnull()].copy()
# Checking the missing values in the dataset.
data.isnull().sum()Let’s check the missing values in the dataset now.
Let’s impute values to the missing values for the month column.
Since the month column is of an object type, let’s calculate the mode of that column and impute those values to the missing values.
# Find the mode of month in data
month_mode = data.month.mode()[0]
# Fill the missing values with mode value of month in data.
data.month.fillna(month_mode, inplace = True)
# Let's see the null values in the month column.
data.month.isnull().sum()Now output is,
# Mode of month is
'may, 2017'
# Null values in month column after imputing with mode
0Handling the missing values in the Response column. Since, our target column is Response Column, if we impute the values to this column it’ll affect our analysis. So, it is better to drop the missing values from Response Column.
#drop the records with response missing in data.
data = data[~data.response.isnull()].copy()
# Calculate the missing values in each column of data frame
data.isnull().sum()Let’s check whether the missing values in the dataset have been handled or not,
All the missing values have been handled
We can also, fill the missing values as ‘NaN’ so that while doing any statistical analysis, it won’t affect the outcome.
Handling Outliers
We have seen how to fix missing values, now let’s see how to handle outliers in the dataset.
Outliers are the values that are far beyond the next nearest data points.
There are two types of outliers:
- Univariate outliers: Univariate outliers are the data points whose values lie beyond the range of expected values based on one variable.
- Multivariate outliers: While plotting data, some values of one variable may not lie beyond the expected range, but when you plot the data with some other variable, these values may lie far from the expected value.
So, after understanding the causes of these outliers, we can handle them by dropping those records or imputing with the values or leaving them as is, if it makes more sense.
Standardizing Values
To perform data analysis on a set of values, we have to make sure the values in the same column should be on the same scale. For example, if the data contains the values of the top speed of different companies’ cars, then the whole column should be either in meters/sec scale or miles/sec scale.
Now, that we are clear on how to source and clean the data, let’s see how we can analyze the data.
3. Univariate Analysis
If we analyze data over a single variable/column from a dataset, it is known as Univariate Analysis.
Categorical Unordered Univariate Analysis:
An unordered variable is a categorical variable that has no defined order. If we take our data as an example, the job column in the dataset is divided into many sub-categories like technician, blue-collar, services, management, etc. There is no weight or measure given to any value in the ‘job’ column.
Now, let’s analyze the job category by using plots. Since Job is a category, we will plot the bar plot.
# Let's calculate the percentage of each job status category.
data.job.value_counts(normalize=True)
#plot the bar graph of percentage job categories
data.job.value_counts(normalize=True).plot.barh()
plt.show()The output looks like this,
By the above bar plot, we can infer that the data set contains more number of blue-collar workers compared to other categories.
Categorical Ordered Univariate Analysis:
Ordered variables are those variables that have a natural rank of order. Some examples of categorical ordered variables from our dataset are:
- Month: Jan, Feb, March……
- Education: Primary, Secondary,……
Now, let’s analyze the Education Variable from the dataset. Since we’ve already seen a bar plot, let’s see how a Pie Chart looks like.
#calculate the percentage of each education category.
data.education.value_counts(normalize=True)
#plot the pie chart of education categories
data.education.value_counts(normalize=True).plot.pie()
plt.show()The output will be,
By the above analysis, we can infer that the data set has a large number of them belongs to secondary education after that tertiary and next primary. Also, a very small percentage of them have been unknown.
This is how we analyze univariate categorical analysis. If the column or variable is of numerical then we’ll analyze by calculating its mean, median, std, etc. We can get those values by using the describe function.
data.salary.describe()The output will be,
4. Bivariate Analysis
If we analyze data by taking two variables/columns into consideration from a dataset, it is known as Bivariate Analysis.
a) Numeric-Numeric Analysis:
Analyzing the two numeric variables from a dataset is known as numeric-numeric analysis. We can analyze it in three different ways.
- Scatter Plot
- Pair Plot
- Correlation Matrix
Scatter Plot
Let’s take three columns ‘Balance’, ‘Age’ and ‘Salary’ from our dataset and see what we can infer by plotting to scatter plot between salary balance and age balance
#plot the scatter plot of balance and salary variable in data
plt.scatter(data.salary,data.balance)
plt.show()
#plot the scatter plot of balance and age variable in data
data.plot.scatter(x="age",y="balance")
plt.show()Now, the scatter plots looks like,
Pair Plot
Now, let’s plot Pair Plots for the three columns we used in plotting Scatter plots. We’ll use the seaborn library for plotting Pair Plots.
#plot the pair plot of salary, balance and age in data dataframe.
sns.pairplot(data = data, vars=['salary','balance','age'])
plt.show()The Pair Plot looks like this,
Correlation Matrix
Since we cannot use more than two variables as x-axis and y-axis in Scatter and Pair Plots, it is difficult to see the relation between three numerical variables in a single graph. In those cases, we’ll use the correlation matrix.
# Creating a matrix using age, salry, balance as rows and columns
data[['age','salary','balance']].corr()
#plot the correlation matrix of salary, balance and age in data dataframe.
sns.heatmap(data[['age','salary','balance']].corr(), annot=True, cmap = 'Reds')
plt.show()First, we created a matrix using age, salary, and balance. After that, we are plotting the heatmap using the seaborn library of the matrix.
b) Numeric - Categorical Analysis
Analyzing the one numeric variable and one categorical variable from a dataset is known as numeric-categorical analysis. We analyze them mainly using mean, median, and box plots.
Let’s take salary and response columns from our dataset.
First check for mean value using groupby
#groupby the response to find the mean of the salary with response no & yes separately.
data.groupby('response')['salary'].mean()The output will be,
There is not much of a difference between the yes and no response based on the salary.
Let’s calculate the median,
#groupby the response to find the median of the salary with response no & yes separately.
data.groupby('response')['salary'].median()The output will be,
By both mean and median we can say that the response of yes and no remains the same irrespective of the person’s salary. But, is it truly behaving like that, let’s plot the box plot for them and check the behavior.
#plot the box plot of salary for yes & no responses.
sns.boxplot(data.response, data.salary)
plt.show()The box plot looks like this,
As we can see, when we plot the Box Plot, it paints a very different picture compared to mean and median. The IQR for customers who gave a positive response is on the higher salary side.
This is how we analyze Numeric-Categorical variables, we use mean, median, and Box Plots to draw some sort of conclusions.
c) Categorical — Categorical Analysis
Since our target variable/column is the Response rate, we’ll see how the different categories like Education, Marital Status, etc., are associated with the Response column. So instead of ‘Yes’ and ‘No’ we will convert them into ‘1’ and ‘0’, by doing that we’ll get the “Response Rate”.
#create response_rate of numerical data type where response "yes"= 1, "no"= 0
data['response_rate'] = np.where(data.response=='yes',1,0)
data.response_rate.value_counts()The output looks like this,
Let’s see how the response rate varies for different categories in marital status.
#plot the bar graph of marital status with average value of response_rate
data.groupby('marital')['response_rate'].mean().plot.bar()
plt.show()The graph looks like this,
By the above graph, we can infer that the positive response is more for Single status members in the data set. Similarly, we can plot the graphs for Loan vs Response rate, Housing Loans vs Response rate, etc.
5. Multivariate Analysis
If we analyze data by taking more than two variables/columns into consideration from a dataset, it is known as Multivariate Analysis.
Let’s see how ‘Education’, ‘Marital’, and ‘Response_rate’ vary with each other.
First, we’ll create a pivot table with the three columns and after that, we’ll create a heatmap.
result = pd.pivot_table(data=data, index='education', columns='marital',values='response_rate')
print(result)
#create heat map of education vs marital vs response_rate
sns.heatmap(result, annot=True, cmap = 'RdYlGn', center=0.117)
plt.show()The Pivot table and heatmap looks like this,
Based on the Heatmap we can infer that the married people with primary education are less likely to respond positively for the survey and single people with tertiary education are most likely to respond positively to the survey.
Similarly, we can plot the graphs for Job vs marital vs response, Education vs poutcome vs response, etc.
Conclusion
This is how we’ll do Exploratory Data Analysis. Exploratory Data Analysis (EDA) helps us to look beyond the data. The more we explore the data, the more the insights we draw from it. As a data analyst, almost 80% of our time will be spent understanding data and solving various business problems through EDA.
Thank you for reading and Happy Coding!!!
#dataanalysis #python
1561523460
Matplotlib Cheat Sheet: Plotting in Python
This Matplotlib cheat sheet introduces you to the basics that you need to plot your data with Python and includes code samples.
Data visualization and storytelling with your data are essential skills that every data scientist needs to communicate insights gained from analyses effectively to any audience out there.
For most beginners, the first package that they use to get in touch with data visualization and storytelling is, naturally, Matplotlib: it is a Python 2D plotting library that enables users to make publication-quality figures. But, what might be even more convincing is the fact that other packages, such as Pandas, intend to build more plotting integration with Matplotlib as time goes on.
However, what might slow down beginners is the fact that this package is pretty extensive. There is so much that you can do with it and it might be hard to still keep a structure when you're learning how to work with Matplotlib.
DataCamp has created a Matplotlib cheat sheet for those who might already know how to use the package to their advantage to make beautiful plots in Python, but that still want to keep a one-page reference handy. Of course, for those who don't know how to work with Matplotlib, this might be the extra push be convinced and to finally get started with data visualization in Python.
You'll see that this cheat sheet presents you with the six basic steps that you can go through to make beautiful plots.
Check out the infographic by clicking on the button below:
With this handy reference, you'll familiarize yourself in no time with the basics of Matplotlib: you'll learn how you can prepare your data, create a new plot, use some basic plotting routines to your advantage, add customizations to your plots, and save, show and close the plots that you make.
What might have looked difficult before will definitely be more clear once you start using this cheat sheet! Use it in combination with the Matplotlib Gallery, the documentation.
Matplotlib
Matplotlib is a Python 2D plotting library which produces publication-quality figures in a variety of hardcopy formats and interactive environments across platforms.
Prepare the Data
1D Data
>>> import numpy as np
>>> x = np.linspace(0, 10, 100)
>>> y = np.cos(x)
>>> z = np.sin(x)2D Data or Images
>>> data = 2 * np.random.random((10, 10))
>>> data2 = 3 * np.random.random((10, 10))
>>> Y, X = np.mgrid[-3:3:100j, -3:3:100j]
>>> U = 1 X** 2 + Y
>>> V = 1 + X Y**2
>>> from matplotlib.cbook import get_sample_data
>>> img = np.load(get_sample_data('axes_grid/bivariate_normal.npy'))Create Plot
>>> import matplotlib.pyplot as pltFigure
>>> fig = plt.figure()
>>> fig2 = plt.figure(figsize=plt.figaspect(2.0))Axes
>>> fig.add_axes()
>>> ax1 = fig.add_subplot(221) #row-col-num
>>> ax3 = fig.add_subplot(212)
>>> fig3, axes = plt.subplots(nrows=2,ncols=2)
>>> fig4, axes2 = plt.subplots(ncols=3)Save Plot
>>> plt.savefig('foo.png') #Save figures
>>> plt.savefig('foo.png', transparent=True) #Save transparent figuresShow Plot
>>> plt.show()Plotting Routines
1D Data
>>> fig, ax = plt.subplots()
>>> lines = ax.plot(x,y) #Draw points with lines or markers connecting them
>>> ax.scatter(x,y) #Draw unconnected points, scaled or colored
>>> axes[0,0].bar([1,2,3],[3,4,5]) #Plot vertical rectangles (constant width)
>>> axes[1,0].barh([0.5,1,2.5],[0,1,2]) #Plot horiontal rectangles (constant height)
>>> axes[1,1].axhline(0.45) #Draw a horizontal line across axes
>>> axes[0,1].axvline(0.65) #Draw a vertical line across axes
>>> ax.fill(x,y,color='blue') #Draw filled polygons
>>> ax.fill_between(x,y,color='yellow') #Fill between y values and 02D Data
>>> fig, ax = plt.subplots()
>>> im = ax.imshow(img, #Colormapped or RGB arrays
cmap= 'gist_earth',
interpolation= 'nearest',
vmin=-2,
vmax=2)
>>> axes2[0].pcolor(data2) #Pseudocolor plot of 2D array
>>> axes2[0].pcolormesh(data) #Pseudocolor plot of 2D array
>>> CS = plt.contour(Y,X,U) #Plot contours
>>> axes2[2].contourf(data1) #Plot filled contours
>>> axes2[2]= ax.clabel(CS) #Label a contour plotVector Fields
>>> axes[0,1].arrow(0,0,0.5,0.5) #Add an arrow to the axes
>>> axes[1,1].quiver(y,z) #Plot a 2D field of arrows
>>> axes[0,1].streamplot(X,Y,U,V) #Plot a 2D field of arrowsData Distributions
>>> ax1.hist(y) #Plot a histogram
>>> ax3.boxplot(y) #Make a box and whisker plot
>>> ax3.violinplot(z) #Make a violin plotPlot Anatomy & Workflow
Plot Anatomy
y-axis
x-axis
Workflow
The basic steps to creating plots with matplotlib are:
1 Prepare Data
2 Create Plot
3 Plot
4 Customized Plot
5 Save Plot
6 Show Plot
>>> import matplotlib.pyplot as plt
>>> x = [1,2,3,4] #Step 1
>>> y = [10,20,25,30]
>>> fig = plt.figure() #Step 2
>>> ax = fig.add_subplot(111) #Step 3
>>> ax.plot(x, y, color= 'lightblue', linewidth=3) #Step 3, 4
>>> ax.scatter([2,4,6],
[5,15,25],
color= 'darkgreen',
marker= '^' )
>>> ax.set_xlim(1, 6.5)
>>> plt.savefig('foo.png' ) #Step 5
>>> plt.show() #Step 6Close and Clear
>>> plt.cla() #Clear an axis
>>> plt.clf(). #Clear the entire figure
>>> plt.close(). #Close a windowPlotting Customize Plot
Colors, Color Bars & Color Maps
>>> plt.plot(x, x, x, x**2, x, x** 3)
>>> ax.plot(x, y, alpha = 0.4)
>>> ax.plot(x, y, c= 'k')
>>> fig.colorbar(im, orientation= 'horizontal')
>>> im = ax.imshow(img,
cmap= 'seismic' )Markers
>>> fig, ax = plt.subplots()
>>> ax.scatter(x,y,marker= ".")
>>> ax.plot(x,y,marker= "o")Linestyles
>>> plt.plot(x,y,linewidth=4.0)
>>> plt.plot(x,y,ls= 'solid')
>>> plt.plot(x,y,ls= '--')
>>> plt.plot(x,y,'--' ,x**2,y**2,'-.' )
>>> plt.setp(lines,color= 'r',linewidth=4.0)Text & Annotations
>>> ax.text(1,
-2.1,
'Example Graph',
style= 'italic' )
>>> ax.annotate("Sine",
xy=(8, 0),
xycoords= 'data',
xytext=(10.5, 0),
textcoords= 'data',
arrowprops=dict(arrowstyle= "->",
connectionstyle="arc3"),)Mathtext
>>> plt.title(r '$sigma_i=15$', fontsize=20)Limits, Legends and Layouts
Limits & Autoscaling
>>> ax.margins(x=0.0,y=0.1) #Add padding to a plot
>>> ax.axis('equal') #Set the aspect ratio of the plot to 1
>>> ax.set(xlim=[0,10.5],ylim=[-1.5,1.5]) #Set limits for x-and y-axis
>>> ax.set_xlim(0,10.5) #Set limits for x-axisLegends
>>> ax.set(title= 'An Example Axes', #Set a title and x-and y-axis labels
ylabel= 'Y-Axis',
xlabel= 'X-Axis')
>>> ax.legend(loc= 'best') #No overlapping plot elementsTicks
>>> ax.xaxis.set(ticks=range(1,5), #Manually set x-ticks
ticklabels=[3,100, 12,"foo" ])
>>> ax.tick_params(axis= 'y', #Make y-ticks longer and go in and out
direction= 'inout',
length=10)Subplot Spacing
>>> fig3.subplots_adjust(wspace=0.5, #Adjust the spacing between subplots
hspace=0.3,
left=0.125,
right=0.9,
top=0.9,
bottom=0.1)
>>> fig.tight_layout() #Fit subplot(s) in to the figure areaAxis Spines
>>> ax1.spines[ 'top'].set_visible(False) #Make the top axis line for a plot invisible
>>> ax1.spines['bottom' ].set_position(( 'outward',10)) #Move the bottom axis line outwardHave this Cheat Sheet at your fingertips
Original article source at https://www.datacamp.com
#matplotlib #cheatsheet #python
1677494820
Zoofs: A Feature Selection Library Based on Evolutionary Algorithms
🐾 zoofs ( Zoo Feature Selection )
zoofs is a Python library for performing feature selection using a variety of nature inspired wrapper algorithms. The algorithms range from swarm-intelligence to physics based to Evolutionary. It's an easy to use, flexible and powerful tool to reduce your feature size.
🔗 Whats new in V0.1.24
- pass kwargs through objective function
- improved logger for results
- added harris hawk algorithm
- now you can pass
timeoutas a parameter to stop operation after the given number of second(s). An amazing alternative to passing number of iterations - Feature score hashing of visited feature sets to increase the overall performance
🛠 Installation
Using pip
Use the package manager to install zoofs.
pip install zoofs
📜 Available Algorithms
| Algorithm Name | Class Name | Description | References doi |
|---|---|---|---|
| Particle Swarm Algorithm | ParticleSwarmOptimization | Utilizes swarm behaviour | https://doi.org/10.1007/978-3-319-13563-2_51 |
| Grey Wolf Algorithm | GreyWolfOptimization | Utilizes wolf hunting behaviour | https://doi.org/10.1016/j.neucom.2015.06.083 |
| Dragon Fly Algorithm | DragonFlyOptimization | Utilizes dragonfly swarm behaviour | https://doi.org/10.1016/j.knosys.2020.106131 |
| Harris Hawk Algorithm | HarrisHawkOptimization | Utilizes hawk hunting behaviour | https://link.springer.com/chapter/10.1007/978-981-32-9990-0_12 |
| Genetic Algorithm Algorithm | GeneticOptimization | Utilizes genetic mutation behaviour | https://doi.org/10.1109/ICDAR.2001.953980 |
| Gravitational Algorithm | GravitationalOptimization | Utilizes newtons gravitational behaviour | https://doi.org/10.1109/ICASSP.2011.5946916 |
More algos soon, stay tuned !
- [Try It Now?]
⚡️ Usage
Define your own objective function for optimization !
Classification Example
from sklearn.metrics import log_loss
# define your own objective function, make sure the function receives four parameters,
# fit your model and return the objective value !
def objective_function_topass(model,X_train, y_train, X_valid, y_valid):
model.fit(X_train,y_train)
P=log_loss(y_valid,model.predict_proba(X_valid))
return P
# import an algorithm !
from zoofs import ParticleSwarmOptimization
# create object of algorithm
algo_object=ParticleSwarmOptimization(objective_function_topass,n_iteration=20,
population_size=20,minimize=True)
import lightgbm as lgb
lgb_model = lgb.LGBMClassifier()
# fit the algorithm
algo_object.fit(lgb_model,X_train, y_train, X_valid, y_valid,verbose=True)
#plot your results
algo_object.plot_history()
Regression Example
from sklearn.metrics import mean_squared_error
# define your own objective function, make sure the function receives four parameters,
# fit your model and return the objective value !
def objective_function_topass(model,X_train, y_train, X_valid, y_valid):
model.fit(X_train,y_train)
P=mean_squared_error(y_valid,model.predict(X_valid))
return P
# import an algorithm !
from zoofs import ParticleSwarmOptimization
# create object of algorithm
algo_object=ParticleSwarmOptimization(objective_function_topass,n_iteration=20,
population_size=20,minimize=True)
import lightgbm as lgb
lgb_model = lgb.LGBMRegressor()
# fit the algorithm
algo_object.fit(lgb_model,X_train, y_train, X_valid, y_valid,verbose=True)
#plot your results
algo_object.plot_history()
Suggestions for Usage
- As available algorithms are wrapper algos, it is better to use ml models that build quicker, e.g lightgbm, catboost.
- Take sufficient amount for 'population_size' , as this will determine the extent of exploration and exploitation of the algo.
- Ensure that your ml model has its hyperparamters optimized before passing it to zoofs algos.
objective score plot
Algorithms
Particle Swarm Algorithm
In computational science, particle swarm optimization (PSO) is a computational method that optimizes a problem by iteratively trying to improve a candidate solution with regard to a given measure of quality. It solves a problem by having a population of candidate solutions, here dubbed particles, and moving these particles around in the search-space according to simple mathematical formula over the particle's position and velocity. Each particle's movement is influenced by its local best known position, but is also guided toward the best known positions in the search-space, which are updated as better positions are found by other particles. This is expected to move the swarm toward the best solutions.
class zoofs.ParticleSwarmOptimization(objective_function,n_iteration=50,population_size=50,minimize=True,c1=2,c2=2,w=0.9)
| Parameters |
The function must return a value, that needs to be minimized/maximized.
Number of time the algorithm will run
Stop operation after the given number of second(s). If this argument is set to None, the operation is executed without time limitation and n_iteration is followed
Total size of the population
Defines if the objective value is to be maximized or minimized
first acceleration coefficient of particle swarm
second acceleration coefficient of particle swarm
weight parameter |
| Attributes |
Final best set of features |
Methods
| Methods | Class Name |
|---|---|
| fit | Run the algorithm |
| plot_history | Plot results achieved across iteration |
fit(model,X_train, y_train, X_test, y_test,verbose=True)
| Parameters |
machine learning model's object
Training input samples to be used for machine learning model
The target values (class labels in classification, real numbers in regression).
Validation input samples
The Validation target values .
Print results for iterations |
| Returns |
Final best set of features |
plot_history()
Plot results across iterations
Example
from sklearn.metrics import log_loss
# define your own objective function, make sure the function receives four parameters,
# fit your model and return the objective value !
def objective_function_topass(model,X_train, y_train, X_valid, y_valid):
model.fit(X_train,y_train)
P=log_loss(y_valid,model.predict_proba(X_valid))
return P
# import an algorithm !
from zoofs import ParticleSwarmOptimization
# create object of algorithm
algo_object=ParticleSwarmOptimization(objective_function_topass,n_iteration=20,
population_size=20,minimize=True,c1=2,c2=2,w=0.9)
import lightgbm as lgb
lgb_model = lgb.LGBMClassifier()
# fit the algorithm
algo_object.fit(lgb_model,X_train, y_train, X_valid, y_valid,verbose=True)
#plot your results
algo_object.plot_history()
Grey Wolf Algorithm
The Grey Wolf Optimizer (GWO) mimics the leadership hierarchy and hunting mechanism of grey wolves in nature. Four types of grey wolves such as alpha, beta, delta, and omega are employed for simulating the leadership hierarchy. In addition, three main steps of hunting, searching for prey, encircling prey, and attacking prey, are implemented to perform optimization.
class zoofs.GreyWolfOptimization(objective_function,n_iteration=50,population_size=50,minimize=True)
| Parameters |
The function must return a value, that needs to be minimized/maximized.
Number of time the algorithm will run
Stop operation after the given number of second(s). If this argument is set to None, the operation is executed without time limitation and n_iteration is followed
Total size of the population
Choose the between the two methods of grey wolf optimization
Defines if the objective value is to be maximized or minimized |
| Attributes |
Final best set of features |
Methods
| Methods | Class Name |
|---|---|
| fit | Run the algorithm |
| plot_history | Plot results achieved across iteration |
fit(model,X_train,y_train,X_valid,y_valid,method=1,verbose=True)
| Parameters |
machine learning model's object
Training input samples to be used for machine learning model
The target values (class labels in classification, real numbers in regression).
Validation input samples
The Validation target values .
Print results for iterations |
| Returns |
Final best set of features |
plot_history()
Plot results across iterations
Example
from sklearn.metrics import log_loss
# define your own objective function, make sure the function receives four parameters,
# fit your model and return the objective value !
def objective_function_topass(model,X_train, y_train, X_valid, y_valid):
model.fit(X_train,y_train)
P=log_loss(y_valid,model.predict_proba(X_valid))
return P
# import an algorithm !
from zoofs import GreyWolfOptimization
# create object of algorithm
algo_object=GreyWolfOptimization(objective_function_topass,n_iteration=20,method=1,
population_size=20,minimize=True)
import lightgbm as lgb
lgb_model = lgb.LGBMClassifier()
# fit the algorithm
algo_object.fit(lgb_model,X_train, y_train, X_valid, y_valid,verbose=True)
#plot your results
algo_object.plot_history()
Dragon Fly Algorithm
The main inspiration of the Dragonfly Algorithm (DA) algorithm originates from static and dynamic swarming behaviours. These two swarming behaviours are very similar to the two main phases of optimization using meta-heuristics: exploration and exploitation. Dragonflies create sub swarms and fly over different areas in a static swarm, which is the main objective of the exploration phase. In the static swarm, however, dragonflies fly in bigger swarms and along one direction, which is favourable in the exploitation phase.
class zoofs.DragonFlyOptimization(objective_function,n_iteration=50,population_size=50,minimize=True)
| Parameters |
The function must return a value, that needs to be minimized/maximized.
Number of time the algorithm will run
Stop operation after the given number of second(s). If this argument is set to None, the operation is executed without time limitation and n_iteration is followed
Total size of the population
Choose the between the three methods of Dragon Fly optimization
Defines if the objective value is to be maximized or minimized |
| Attributes |
Final best set of features |
Methods
| Methods | Class Name |
|---|---|
| fit | Run the algorithm |
| plot_history | Plot results achieved across iteration |
fit(model,X_train,y_train,X_valid,y_valid,method='sinusoidal',verbose=True)
| Parameters |
machine learning model's object
Training input samples to be used for machine learning model
The target values (class labels in classification, real numbers in regression).
Validation input samples
The Validation target values .
Print results for iterations |
| Returns |
Final best set of features |
plot_history()
Plot results across iterations
Example
from sklearn.metrics import log_loss
# define your own objective function, make sure the function receives four parameters,
# fit your model and return the objective value !
def objective_function_topass(model,X_train, y_train, X_valid, y_valid):
model.fit(X_train,y_train)
P=log_loss(y_valid,model.predict_proba(X_valid))
return P
# import an algorithm !
from zoofs import DragonFlyOptimization
# create object of algorithm
algo_object=DragonFlyOptimization(objective_function_topass,n_iteration=20,method='sinusoidal',
population_size=20,minimize=True)
import lightgbm as lgb
lgb_model = lgb.LGBMClassifier()
# fit the algorithm
algo_object.fit(lgb_model,X_train, y_train, X_valid, y_valid, verbose=True)
#plot your results
algo_object.plot_history()
Harris Hawk Optimization
HHO is a popular swarm-based, gradient-free optimization algorithm with several active and time-varying phases of exploration and exploitation. This algorithm initially published by the prestigious Journal of Future Generation Computer Systems (FGCS) in 2019, and from the first day, it has gained increasing attention among researchers due to its flexible structure, high performance, and high-quality results. The main logic of the HHO method is designed based on the cooperative behaviour and chasing styles of Harris' hawks in nature called "surprise pounce". Currently, there are many suggestions about how to enhance the functionality of HHO, and there are also several enhanced variants of the HHO in the leading Elsevier and IEEE transaction journals.
class zoofs.HarrisHawkOptimization(objective_function,n_iteration=50,population_size=50,minimize=True,beta=0.5)
| Parameters |
The function must return a value, that needs to be minimized/maximized.
Number of time the algorithm will run
Stop operation after the given number of second(s). If this argument is set to None, the operation is executed without time limitation and n_iteration is followed
Total size of the population
Defines if the objective value is to be maximized or minimized
value for levy random walk |
| Attributes |
Final best set of features |
Methods
| Methods | Class Name |
|---|---|
| fit | Run the algorithm |
| plot_history | Plot results achieved across iteration |
fit(model,X_train, y_train, X_test, y_test,verbose=True)
| Parameters |
machine learning model's object
Training input samples to be used for machine learning model
The target values (class labels in classification, real numbers in regression).
Validation input samples
The Validation target values .
Print results for iterations |
| Returns |
Final best set of features |
plot_history()
Plot results across iterations
Example
from sklearn.metrics import log_loss
# define your own objective function, make sure the function receives four parameters,
# fit your model and return the objective value !
def objective_function_topass(model,X_train, y_train, X_valid, y_valid):
model.fit(X_train,y_train)
P=log_loss(y_valid,model.predict_proba(X_valid))
return P
# import an algorithm !
from zoofs import HarrisHawkOptimization
# create object of algorithm
algo_object=HarrisHawkOptimization(objective_function_topass,n_iteration=20,
population_size=20,minimize=True)
import lightgbm as lgb
lgb_model = lgb.LGBMClassifier()
# fit the algorithm
algo_object.fit(lgb_model,X_train, y_train, X_valid, y_valid,verbose=True)
#plot your results
algo_object.plot_history()
Genetic Algorithm
In computer science and operations research, a genetic algorithm (GA) is a metaheuristic inspired by the process of natural selection that belongs to the larger class of evolutionary algorithms (EA). Genetic algorithms are commonly used to generate high-quality solutions to optimization and search problems by relying on biologically inspired operators such as mutation, crossover and selection. Some examples of GA applications include optimizing decision trees for better performance, automatically solve sudoku puzzles, hyperparameter optimization, etc.
class zoofs.GeneticOptimization(objective_function,n_iteration=20,population_size=20,selective_pressure=2,elitism=2,mutation_rate=0.05,minimize=True)
| Parameters |
The function must return a value, that needs to be minimized/maximized.
Number of time the algorithm will run
Stop operation after the given number of second(s). If this argument is set to None, the operation is executed without time limitation and n_iteration is followed
Total size of the population
measure of reproductive opportunities for each organism in the population
number of top individuals to be considered as elites
rate of mutation in the population's gene
Defines if the objective value is to be maximized or minimized |
| Attributes |
Final best set of features |
Methods
| Methods | Class Name |
|---|---|
| fit | Run the algorithm |
| plot_history | Plot results achieved across iteration |
fit(model,X_train,y_train,X_valid,y_valid,verbose=True)
| Parameters |
machine learning model's object
Training input samples to be used for machine learning model
The target values (class labels in classification, real numbers in regression).
Validation input samples
The Validation target values .
Print results for iterations |
| Returns |
Final best set of features |
plot_history()
Plot results across iterations
Example
from sklearn.metrics import log_loss
# define your own objective function, make sure the function receives four parameters,
# fit your model and return the objective value !
def objective_function_topass(model,X_train, y_train, X_valid, y_valid):
model.fit(X_train,y_train)
P=log_loss(y_valid,model.predict_proba(X_valid))
return P
# import an algorithm !
from zoofs import GeneticOptimization
# create object of algorithm
algo_object=GeneticOptimization(objective_function_topass,n_iteration=20,
population_size=20,selective_pressure=2,elitism=2,
mutation_rate=0.05,minimize=True)
import lightgbm as lgb
lgb_model = lgb.LGBMClassifier()
# fit the algorithm
algo_object.fit(lgb_model,X_train, y_train,X_valid, y_valid, verbose=True)
#plot your results
algo_object.plot_history()
Gravitational Algorithm
Gravitational Algorithm is based on the law of gravity and mass interactions is introduced. In the algorithm, the searcher agents are a collection of masses which interact with each other based on the Newtonian gravity and the laws of motion.
class zoofs.GravitationalOptimization(self,objective_function,n_iteration=50,population_size=50,g0=100,eps=0.5,minimize=True)
| Parameters |
The function must return a value, that needs to be minimized/maximized.
Number of time the algorithm will run
Stop operation after the given number of second(s). If this argument is set to None, the operation is executed without time limitation and n_iteration is followed
Total size of the population
gravitational strength constant
distance constant
Defines if the objective value is to be maximized or minimized |
| Attributes |
Final best set of features |
Methods
| Methods | Class Name |
|---|---|
| fit | Run the algorithm |
| plot_history | Plot results achieved across iteration |
fit(model,X_train,y_train,X_valid,y_valid,verbose=True)
| Parameters |
machine learning model's object
Training input samples to be used for machine learning model
The target values (class labels in classification, real numbers in regression).
Validation input samples
The Validation target values .
Print results for iterations |
| Returns |
Final best set of features |
plot_history()
Plot results across iterations
Example
from sklearn.metrics import log_loss
# define your own objective function, make sure the function receives four parameters,
# fit your model and return the objective value !
def objective_function_topass(model,X_train, y_train, X_valid, y_valid):
model.fit(X_train,y_train)
P=log_loss(y_valid,model.predict_proba(X_valid))
return P
# import an algorithm !
from zoofs import GravitationalOptimization
# create object of algorithm
algo_object=GravitationalOptimization(objective_function_topass,n_iteration=50,
population_size=50,g0=100,eps=0.5,minimize=True)
import lightgbm as lgb
lgb_model = lgb.LGBMClassifier()
# fit the algorithm
algo_object.fit(lgb_model,X_train, y_train, X_valid, y_valid, verbose=True)
#plot your results
algo_object.plot_history()
Support zoofs
The development of zoofs relies completely on contributions.
Contributing
Pull requests are welcome. For major changes, please open an issue first to discuss what you would like to change.
Please make sure to update tests as appropriate.
First roll out
18,08,2021
🌟 Like this Project? Give us a star !
📘 Documentation
https://jaswinder9051998.github.io/zoofs/
Download Details:
Author: jaswinder9051998
Source Code: https://github.com/jaswinder9051998/zoofs
License: Apache-2.0 license
1626775355
Why use Python for Software Development
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5 Reasons to Utilize Python for Programming Web Apps
Python can do such numerous things that developers can't discover enough reasons to admire it. Python application development isn't restricted to web and enterprise applications. It is exceptionally adaptable and superb for a wide range of uses.
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Thinking about the advances in programming and innovation, Python is a YES for an assorted scope of utilizations. Game development, web application development services, GUI advancement, ML and AI improvement, Enterprise and customer applications - every one of them uses Python to its full potential.
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1600470000
How to Make ECDF plot with Seaborn in Python?
ECDF plot, aka, Empirical Cumulative Density Function plot is one of the ways to visualize one or more distributions.
In this post, we will learn how to make ECDF plot using Seaborn in Python. Till recently, there was no out of the box function to make ECDF plot easily in Seaborn. With the Seaborn version 0.11.0 that became available we have function ecdfplot to make ECDF plot.
The ECDF plot has two key advantages. Unlike the histogram or KDE, it directly represents each datapoint. That means there is no bin size or smoothing parameter to consider. Additionally, because the curve is monotonically increasing, it is well-suited for comparing multiple distributions:
With the new Seaborn version we have two functions available to make ECDF plot. We will first use ecdfplot() function in Seaborn to ECDF plot and then also use Seaborn’s displot() function to ECDF plot. Let us load the libraries needed for making ECDF plot.
#ecdf plot #python #seaborn displot() #seaborn ecdfplot() #seaborn