def plot_missing_values(df, kind="matrix"):
if kind == "matrix":
return msno.matrix(df)
if kind == "bar":
return msno.bar(df)
if kind == "heatmap":
msno.heatmap(df)
def get_missings(self, missing_tag = None):
'''
Sometimes missing values are denoted with a number or string,
enter the missing tag to replace them with NAs
'''
if missing_tag is not None:
self.df.replace(missing_tag, np.nan, inplace = True)
# check if there are any null values
if self.df.isnull().sum().sum() == 0:
print('''There is no missing value, please check if the missings have been encoded with non-NAN value.
Use argument missing_tag for encoded missing values''')
else:
# missing heatmap display the missing values position in the dataset
missing_heatmap = plt.figure(1)
msno.matrix(self.df)
plt.title('Missing Values shown in White',fontsize=25)
# correlation plot: how strongly the presence or absence of one variable affects the presence of another
correlation_plot = plt.figure(2)
msno.heatmap(self.df,cbar= False)
plt.title('Missing Values Correlation',fontsize=25)
# The dendrogram uses a hierarchical clustering algorithm
# to bin variables against one another by their missing values correlation
missing_dendogram = plt.figure(3)
msno.dendrogram(self.df)
plt.title('Missing Values Dendrogram',fontsize=25)
def heat_missing(sample_df, title):
missing_data_df = sample_df.columns[sample_df.isnull().any()].tolist()
msno.heatmap(sample_df[missing_data_df], figsize=(20, 20))
plt.title(title, fontsize=24)
fig = plt.gcf()
fig.savefig('graphs/' + title + '.png')
plt.show()
def plot_missing_heatmap(df):
'''plot missing values heatmap'''
fig, ax = plt.subplots()
fig.set_size_inches(3, 2, forward=True)
msno.heatmap(df, ax=ax)
st.pyplot(fig)
def missing_heatmap(data: pd.DataFrame) -> str:
"""Generate missing values heatmap plot.
Args:
data: Pandas DataFrame to generate missing values heatmap plot from.
Returns:
The resulting missing values heatmap plot encoded as a string.
"""
height = 4
if len(data.columns) > 10:
height += int((len(data.columns) - 10) / 5)
height = min(height, 10)
font_size = get_font_size(data)
if len(data.columns) > 40:
font_size /= 1.4
labels = config["plot"]["missing"]["force_labels"].get(bool)
missingno.heatmap(
data,
figsize=(10, height),
fontsize=font_size,
cmap=config["plot"]["missing"]["cmap"].get(str),
labels=labels,
)
if len(data.columns) > 40:
plt.subplots_adjust(left=0.1, right=0.9, top=0.9, bottom=0.3)
else:
plt.subplots_adjust(left=0.2, right=0.9, top=0.8, bottom=0.3)
return plot_360_n0sc0pe(plt)
def data_heatmap():
import pandas as pd
import missingno as msno
df = pd.read_csv('../Data/recipeData.csv')
msno.heatmap(df)
plt.savefig('..\Results\Crafted-beer-Heatmap.png')
return
def nan_analysis(df, figure_size=(12, 5)):
# fig, axs = plt.subplots(3,1)
# nan ratio in each feature
msno.bar(df, figsize=figure_size)
time.sleep(0.2)
# nan ratio in each row
msno.matrix(df, figsize=figure_size)
time.sleep(0.2)
# plot nan correlation between features
msno.heatmap(df, figsize=figure_size)
def correlacao_viz(self, df, colunas=None, anotado=False):
'''
Matriz de correlação de um DataFrame
: param df: Dataframe
: param colunas: lista de colunas a visualizar
: param anotado: booleano para anotar valor da correlacao
'''
from seaborn import heatmap
print('Visualizando correlação de Pearson (NAs removidos)')
heatmap(df[colunas].dropna().corr(), annot=anotado)
def plotMissingValuesHeatMap(dataset, pic_name):
#sns.heatmap(dataset.isnull(), cbar=False)
#plt.figure(figsize=(20, 20))
#msno.heatmap(dataset,)
#sns.heatmap(dataset.isnull(), cbar=False)
#msno.bar(dataset)
msno.heatmap(dataset)
#cmap = sns.cubehelix_palette(as_cmap=True, light=.9)
#sns.heatmap(dataset.isnull(), cmap=cmap, mask=dataset.isnull())
#msno.matrix(dataset)
plt.savefig("./graphs/crime/" + pic_name + ".png")
def missing_value_analysis(df):
'''
Function to do basic missing value analysis
Required Input -
- df = Pandas DataFrame
Expected Output -
- Chart of Missing value co-occurance
- Chart of Missing value heatmap
'''
msno.matrix(df)
msno.heatmap(df)
def missing(dataframe, graph=False):
dataframe_na = (dataframe.isnull().sum() / len(dataframe)) * 100
dataframe_na = dataframe_na.drop(
dataframe_na[dataframe_na == 0].index).sort_values(
ascending=False)[:30]
missing_data = pd.DataFrame({'Missing Ratio': dataframe_na})
print(missing_data.head(20))
if graph == True:
missing_data = dataframe.columns[dataframe.isnull().any()].tolist()
msno.matrix(dataframe[missing_data])
msno.heatmap(dataframe[missing_data], figsize=(20, 20))
def missings_viz(self,
df,
visualizar=True,
escolhido_tipo=None,
df_missings=False):
'''
Visualizar os missings, plota o tipo de visualizacao
: param df: pd.DataFrame para visualizar
: param visualizar: booleano para decidir qual visualizar
: param escolhido_tipo: inteiro para decidir qual tipo visualizar
: param df_missings: booleano para retorna Dataframe com percentual de nulos
: return: pd.DataFrame com nomes das colunas e porcentagem missings
'''
if visualizar:
# para quem usar um tema dark na IDE
from matplotlib.pyplot import style
style.use('classic')
# colunas com missings apenas
cols_miss = df.isnull().any()
cols_miss = df.columns[cols_miss]
if escolhido_tipo == None:
print('Tipo de visualizacao: ', '\n', 'total de missings - 1',
'\n', 'ordem de aparição - 2', '\n', 'correlação - 3',
'\n', 'dendograma - 4')
escolhido_tipo = int(input())
print('Visualização missings')
# total
if escolhido_tipo == 1:
from missingno import bar
bar(df[cols_miss])
# ordem aparicao
elif escolhido_tipo == 2:
from missingno import matrix
matrix(df[cols_miss])
# correlacao
elif escolhido_tipo == 3:
from missingno import heatmap
heatmap(df[cols_miss])
# dendograma
elif escolhido_tipo == 4:
from missingno import dendrogram
dendrogram(df[cols_miss])
if df_missings:
from funcoesProprias import dfExploracao
print('Cálculo do percentual de missings num DataFrame')
explora = dfExploracao(df)
explora = explora.sort_values(['tipos', 'na_perct', 'quantUnicos'])
return explora
def missingValueGraphAndRelation(data):
try:
plt.title(' Missing Values Graph ')
sns.set_style("whitegrid")
missing = data.isnull().sum()
missing = missing[missing > 0]
missing.sort_values(inplace=True)
missing.plot.bar()
msno.heatmap(data) # relation of missing values with other values
print(data.isnull().sum().sort_values(ascending=False))
except:
print("No missing Value exit")
def missing_visualization(self):
# bar chart
msno.bar(self.data)
plt.savefig('../resources/bar.png', bbox_inches='tight')
# correlation
msno.heatmap(self.data)
plt.savefig('../resources/correlation.png', bbox_inches='tight')
# heat map
sns.heatmap(self.data.isnull(), cbar=False)
plt.savefig('../resources/heat_map.png', bbox_inches='tight')
def missing_data(dataframe):
#Matrix
#The nullity matrix is a data-dense display which lets
#you quickly visually pick out patterns in data completion.
msno.matrix(dataframe.sample(500))
#Heatmap
# The missingno correlation heatmap measures nullity correlation:
#how strongly the presence or absence of one variable affects
#the presence of another:
msno.heatmap(dataframe)
def visualize_missing(df=None):
"""Visualize missing values.
The missingness of the dataset is visualized in bar chart,
matrix and heatmap.
"""
print("")
display(HTML('<h4>Visualize Missing Data ...</h4>'))
print("")
msno.matrix(df, figsize=(6, 4), fontsize=12)
msno.bar(df, figsize=(6, 4), fontsize=12)
msno.heatmap(df, figsize=(6, 4), fontsize=12)
plt.show()
def plot_correlation_between_missing_data(df: pd.DataFrame, group_by=None):
"""Get a Seaborn heatmap of column correlations.
Arguments:
df {pd.DataFrame} -- Pandas dataframe.
group_by {str} -- Specify the name of a column in df to groupby if desired.
Otherwise leave it as none. (default: {None})
"""
if group_by is not None:
grouped = df.groupby(group_by)
for _, group in grouped:
msno.heatmap(group)
else:
msno.heatmap(df)
def visualizing_nulls(df, graph):
'''
This function visualizes nulls using the missingno package. It
takes in a dataframe and the type of graph we want, and then
returns the graph
'''
if graph == 'nullity':
mno.matrix(df)
elif graph == 'bar':
mno.bar(df, color='purple', log='True', figsize=(30, 18))
elif graph == 'corr':
mno.heatmap(df, figsize=(20, 20))
plt.show()
def nullity_heatmap(dataframes, figsize=(20, 20), include_all=False):
""" Plots the nullity heatmap of the missinggo library for the datasets.
Args:
dataframes (pandas' dataframe or a list of pandas' dataframes): The instances or a list of different instance to plot.
figsize (tuple(int,int)): The size of the plot
include_all (bool): if true show all features if false shows only features with missing values.
"""
# convert to pandas' list if required
dfs = util.df_to_dfs(dataframes)
# loop and plot the nullity heatmap for each dataframe passed
for i in range(len(dataframes)):
tmp_df = dfs[i] if include_all == True else dfs[i][dfs[i].columns[
dfs[i].isna().any()].tolist()]
msno.heatmap(tmp_df, labels=True, figsize=figsize)
def missing_visuals(df):
"""Plot missing values information
Args:
df (DataFrame): Source DataFrame
Returns:
None
"""
# Identify columns with null values
null_cols = df.columns[df.isnull().any()].tolist()
msno.matrix(df[null_cols], figsize=(7, 7))
msno.heatmap(df[null_cols], figsize=(12, 8))
def create_heatmap_nan():
"""Create nullity correlation heatmap and save the plot to ``matrix_nan.png``
in the "OUT_DATA" directory.
"""
index_category = pd.Index(new_labels)
sorted_by_category = gate_plot[index_category]
heatmap_nan = msno.heatmap(sorted_by_category, vmin=0, cmap="OrRd")
heatmap_nan.get_xticklabels()[16].set_fontweight("bold")
heatmap_nan.get_yticklabels()[16].set_fontweight("bold")
# Interesting fact:
# When plotting heatmaps with seaborn (on which the "missingno" library
# builds), the first and the last row is cut in halve, because of a bug
# in the matplotlib regression between 3.1.0 and 3.1.1
# We are correcting it this way:
bottom, top = heatmap_nan.get_ylim()
heatmap_nan.set_ylim(bottom + 0.5, top - 0.5)
positions = np.array([1, 3, 5, 8, 10, 14, 16])
labels = [
"BACKGROUND",
"HOUSEHOLD",
"FINANCE",
"HEALTH",
"EMPLOYMENT",
"PERSONALITY",
]
heatmap_nan.hlines(positions, xmin=0, xmax=positions, lw=8, color="white")
for position, label in zip(positions, labels):
heatmap_nan.text(position + 0.35, position + 0.35, label, fontsize=14)
heatmap_nan.figure.savefig(ppj("OUT_FIGURES", "heatmap_nan.png"),
bbox_inches="tight")
def plot_nullility_corr(data, **kwargs):
"""Plot the nullility correlation of missing data within a DataFrame.
Args:
data (pd.DataFrame): DataFrame to plot.
**kwargs: Keyword arguments for plot. Passed to missingno.heatmap.
Returns:
matplotlib.axes._subplots.AxesSubplot: nullility correlation plot.
Raises:
TypeError: if data is not a DataFrame. Error raised through decorator.
ValueError: dataset fully observed. Raised through helper method.
"""
_fully_complete(data)
defaults = _default_plot_args(**kwargs)
msno.heatmap(data, figsize=defaults["figure.figsize"], **kwargs)
def plot_miss(self,filename:str,asc=0,figsize=(10,6)):
"""
缺失可视化
:param df:df
:param filename:str 路径及文件名
:param asc: int 统计方法,Matrix(asc=0),BarChart(asc=1),Heatmap(asc=2)
:param figsize tupe 图片大小
:return:保存结果
"""
filename = check_str(filename)
if asc == 0:
msno.matrix(df=self._df)
elif asc == 1:
msno.bar(df=self._df, figsize=figsize)
else:
msno.heatmap(df=self._df, figsize=figsize)
plt.savefig(filename)
def plot_nan_correlation(data):
# PLOTS PERCENTAGE OF NANS USING BARS
"""
-1 (if one variable appears the other definitely does not)
0 (variables appearing or not appearing have no effect on one another)
1 (if one variable appears the other definitely also does).
"""
return missingno.heatmap(data.X)
def miss_value():
# pip install missingno
import missingno as msno
import pandas as pd
import numpy as ny
data = pd.read_csv("model.csv")
# 无效矩阵的数据密集显示
msno.matrix(data, labels=True, inline=False, sort='descending')
# 条形图
msno.bar(data)
# 热图相关性 一个变量的存在或不存在如何强烈影响的另一个的存在
# 关性为1，说明X5只要发生了缺失，那么X1.1也会缺失。 相关性为-1，说明X7缺失的值，那么X8没有缺失；而X7没有缺失时，X8为缺失。
msno.heatmap(data)
# 树状图 层次聚类算法通过它们的无效性相关性（根据二进制距离测量）将变量彼此相加，
# 哪个组合最小化剩余簇的距离来分割变量。变量集越单调，它们的总距离越接近零，并且它们的平均距离（y轴）越接近零。
msno.dendrogram(data)
def PlotMissingHeatMap(self, df, start, end):
"""
The missingno correlation heatmap measures nullity correlation:
how strongly the presence or absence of one variable affects
the presence of another.
"""
plotHM = msno.heatmap(df.iloc[:, start:end], figsize=(20, 14))
plt.show(plotHM)
def missing_heatmap(df):
try:
fig = plt.figure()
hm = heatmap(df)
ax = plt.gca()
plt.savefig('datascience/' + 'missing_heatmap.png')
plt.close(fig)
except:
pass
def missing_stats(self):
# Basic Stats
self.all.info()
# Heatmap
sns.heatmap(self.all.isnull(), cbar=False)
col_missing=[name for name in self.all.columns if np.sum(self.all[name].isnull()) !=0]
col_missing.remove('SalePrice')
print(col_missing)
msno.heatmap(self.all)
plt.figure()
msno.heatmap(self.all[['BsmtFinSF1','BsmtFinSF2','BsmtFullBath','BsmtHalfBath','BsmtUnfSF','TotalBsmtSF']])
plt.figure()
msno.heatmap(self.all[['GarageCond', 'GarageFinish', 'GarageFinish', 'GarageQual','GarageType', 'GarageYrBlt']])
plt.figure()
msno.dendrogram(self.all)
plt.figure()
# Bar chart
if len(col_missing) != 0:
plt.figure(figsize=(12,6))
np.sum(self.all[col_missing].isnull()).plot.bar(color='b')
# Table
print(pd.DataFrame(np.sum(self.all[col_missing].isnull())))
print(np.sum(self.all[col_missing].isnull())*100/self.all[col_missing].shape[0])
def corrMissing(df, method):
"""
Assess how strongly the presence or absence of one variable affects the
presence or absence of another. For heatmaps, nullity correlations range
from -1 (if one variable appears and the other does not) to 0 (variables
appearing or not have no effect on one another) to 1 (if one variable
appears the other also appears)). Entries marked <1 or >-1 point to records
in the dataset which may be erroneous. For dendrograms, variables are binned
against one another by their nullity correlation (measured in terms of
binary distance). Read the graph from top-down. Cluster leaves which are
linked together at a distance of zero fully predict one another's presence
- whether negatively or positively. Cluster leaves which split close to
zero, but not at it, predict one another well, but not perfectly. These
examples may indicate erroneous data, especially if those particular
columns actually are or ought to match each other perfectly in nullity. See
missingno documentation for more information.
"""
if type(df) is pd.DataFrame:
if type(method) is str:
if method == "heatmap":
msno.heatmap(df,
labels=True,
fontsize=8,
cmap="copper",
figsize=(10, 10))
plt.title("Missing Values Correlations")
plt.show()
if method == "dendrogram":
msno.dendrogram(df,
orientation="right",
fontsize=8,
figsize=(10, 10))
plt.title("Missing Values Correlations")
plt.show()
else:
print("Method type requires string (i.e., heatmap, dendrogram)")
else:
print("Not a Pandas dataframe")
def missing_value_plotting(self):
'''
Display plot for the missing value of the dataframe
Parameters
----------
None.
Returns
-------
Display plot for the missing value of the dataframe and save them.
'''
print("Plotting Missing Values...")
'''
The sparkline at right summarizes the general shape of the data completeness
and points out the rows with the maximum and minimum nullity in the dataset.
'''
plt.figure()
msno.bar(self.dataframe)
plt.title("Matrice des valeurs manquantes des données\n", fontsize=18)
plt.figure()
msno.matrix(self.dataframe)
plt.title("Diagramme à barres des valeurs manquantes des données\n",
fontsize=18)
'''
A value near -1 means if one variable appears then the other variable is very likely to be missing.
A value near 0 means there is no dependence between the occurrence of missing values of two variables.
A value near 1 means if one variable appears then the other variable is very likely to be present.
'''
plt.figure()
msno.heatmap(self.dataframe)
plt.title("Diagramme à barres des valeurs manquantes des données\n",
fontsize=18)
plt.figure()
msno.dendrogram(self.dataframe)
def test_alternative_colormap_heatmap(self):
msno.heatmap(self.simple_df, cmap='viridis')
return plt.gcf()
def test_unlabelled_heatmap(self):
msno.heatmap(self.simple_df, labels=False)
return plt.gcf()
def test_simple_heatmap(self):
msno.heatmap(self.simple_df)
return plt.gcf()
