In our course we quite a bit touched unsupervised learning tasks (reduction of dimenstion and clustering), and one more important class remained unnoticed - the detection of anomalies.

In data science anomaly detection (outlier or novelty detection) is the identification of rare items, events or observations which raise suspicions by differing significantly from the majority of the data. Typically the anomalous items will translate to some kind of problem such as bank fraud, a structural defect, medical problems or errors in a text. Anomalies are also referred to as outliers, novelties, noise, deviations and exceptions. Outliers often reduce the quality of ML algorithms because models tune to them.

One of the proven anomaly detection algorithms is the Isolation Forest. As the name implies - this is an ensemble of trees, which are built independently of each other. But in this case, the principle of building a tree is different from what is used in regression or classification problems - minimizing the splitting criterion at each step. The trees are also binary, but at each node the feature is chosen randomly, the feature values for splitting are also chosen randomly from the range (min, max) that the feature accepts. The tree is built to the maximum possible depth - when there is only one object in each leaf. With this approach, it appears that the anomalies will get to the final leaf much earlier than normal objects. This is the principle of detecting anomalies which Isolation Forest uses, this algorithm "isolates" anomalies by normal objects at early steps.

Perhaps it seems not quite obvious, but we can consider the following one-dimensional toy example - such a set of numbers [1,20,21,25]. Obviously, the outlier in this case is the number 1. If we choose the threshold for the first splitting (1,25), then in the overwhelming majority of cases, the number 1 will immediately “isolate” in the first leaf of the tree. Let's simulate this situation for 1000 random threshold choices.

In [ ]:

```
# Importing libaries
import matplotlib.pyplot as plt
import numpy as np
import pandas as pd
```

In [ ]:

```
# Toy example
hits = 0
K = 1000
for k in range(K):
np.random.seed(k + 101)
split = np.random.uniform(1, 25)
if split < 20:
hits += 1
print('The portion of cases when the "1" goes to the first leaf:', hits / K)
```

In this way, we can measure the anomaly score using the path length of the object, i.e. the number of edges an observation must pass in the tree going from the root to the terminal node. But we have a problem, for sample data $X$= {$x_1,...,x_n$} the maximum possible height of isolation tree grows in the order of $n$, the average path length grows in the order of $log({n})$. Therefore, we cannot compare the anomaly of objects in samples of different sizes, normalization by any of the above values will not help either. So we will use this formula for normalization:

where $H(n-1)$ is $n$-$Harmonic$ number:

$c({n})$ gives the average path length of unsuccessful search in Binary Search Tree (BST). We can use it because isolation tree has a equivalent structure to BST and $c({n})$ equals to estimation of average $h({x})$ for external nodes.

So final anomaly score is calculated by this formula:

where $E(x)$ - average path length in trees of our forest where example $x$ was isolated:

and $N$ - number of trees in the forest.

$S(x,n)$ changes from $0$ to $1$. When $S(x,n)$ of example is very close to $1$ it means that it is definitely anomaly, when it much smaller then $0.5$ then this example safe to be regarded as normal instance, and if all examples have $S(x,n) \approx 0.5$, then the entire data doesn't have any distinct anomaly.

When we decide which example is anomaly we can choose portion of examples with high score or make a threshold in $S(x,n)$.

In [ ]:

```
from math import log as ln
import matplotlib.pyplot as plt
# Importing libaries ----
import numpy as np
import pandas as pd
import seaborn as sns
```

In [ ]:

```
# External Node - leaf with 1 example
class ExNode:
def __init__(self, size):
self.size = size
```

In [ ]:

```
# Internal Node
class InNode:
def __init__(self, left, right, split_feature, split_threshold):
self.left = left
self.right = right
self.split_feature = split_feature
self.split_threshold = split_threshold
```

In [ ]:

```
# Build one Isolation tree
def IsolationTree(X):
if len(X) <= 1:
return ExNode(len(X))
else:
f = np.random.choice(X.columns)
t = np.random.uniform(X[f].min(), X[f].max())
X_l = X[X[f] < t]
X_r = X[X[f] >= t]
return InNode(IsolationTree(X_l), IsolationTree(X_r), f, t)
```

In [ ]:

```
# Build forest
def MyIsolationForest(X, n_trees):
forest = []
for i in range(n_trees):
forest.append(IsolationTree(X))
return forest
```

In [ ]:

```
# Depth of external node where object was isolated
def path_length(x, tree, curr_depth):
if isinstance(tree, ExNode):
return curr_depth
t = tree.split_feature
if x[t] < tree.split_threshold:
return path_length(x, tree.left, curr_depth + 1)
else:
return path_length(x, tree.right, curr_depth + 1)
```

Functions which is needed to calculate degree of anomaly: $E(d), H(x), c(n), S(x,n)$.

In [ ]:

```
def E(d):
return np.mean(d)
def H(x):
return ln(x) + 0.5772156649
def c(n):
return 2 * H(n - 1) - 2 * (n - 1) / n if n > 2 else 1 if n == 1 else 0
def S(x, n):
return 2 ** (-E(x) / c(n))
```

In [ ]:

```
# Generating normal distributed 1d-data
random_generator = np.random.RandomState(42)
true_mean = 100
true_sigma = 10
X_all = random_generator.normal(true_mean, true_sigma, size=500)
print("Normal interval:", true_mean - 2 * true_sigma, "-", true_mean + 2 * true_sigma)
X_outliers = pd.DataFrame(
np.hstack(
[
X_all[X_all < true_mean - 2 * true_sigma],
X_all[X_all > true_mean + 2 * true_sigma],
]
),
columns=["x"],
)
X_normal = pd.DataFrame(list(set(X_all).difference(set(X_outliers))), columns=["x"])
X_all = pd.DataFrame(X_all, columns=["x"])
print("Partition of outliers:", len(X_outliers) / len(X_all))
```

In [ ]:

```
plt.figure(figsize=(10, 5))
plt.hist(X_all["x"], bins=10)
plt.hist(X_outliers["x"], bins=10)
plt.legend(["X_all", "X_outliers"])
plt.ylabel("Count")
plt.xlabel("X value")
plt.title("Distribution of X");
```

In [ ]:

```
# Outlier for test
X_outliers.iloc[2, :]
```

In [ ]:

```
# Normal example for test
X_normal.iloc[0, :]
```

In [ ]:

```
%%time
anomaly_x = []
normal_x = []
anomaly_mean_depth = []
normal_mean_depth = []
anomaly_S = []
normal_S = []
for n in range(1, 51, 1):
MyIF = MyIsolationForest(X_all, n)
for iTree in MyIF:
anomaly_x.append(path_length(X_outliers.iloc[2, :], iTree, 0))
normal_x.append(path_length(X_normal.iloc[0, :], iTree, 0))
anomaly_mean_depth.append(E(anomaly_x))
normal_mean_depth.append(E(normal_x))
anomaly_S.append(S(anomaly_x, len(X_all)))
normal_S.append(S(normal_x, len(X_all)))
```

In [ ]:

```
plt.figure(figsize=(10, 5))
plt.plot(range(1, 51, 1), anomaly_mean_depth, c="r")
plt.plot(range(1, 51, 1), normal_mean_depth, c="g")
plt.title("Average path length (n_trees)")
plt.legend(["anomaly", "normal"])
plt.xlabel("Number of trees")
plt.ylabel("Average path length");
```

In [ ]:

```
plt.figure(figsize=(10, 5))
plt.plot(range(1, 51, 1), anomaly_S, c="r")
plt.plot(range(1, 51, 1), normal_S, c="g")
plt.title("S (n_trees)")
plt.legend(["anomaly", "normal"])
plt.xlabel("Number of trees")
plt.ylabel("S(x,n)");
```

As we can see anomaly object has obviously less path depth and bigger $S(x,n)$. Also we don't need many trees to detect anomalies, approximately at 15 trees we reach the asymptote.

Ok, let's find outliers in 2-d data. We will use IsolationForest with 30 trees to find our otliers and check the quality of detection.

In [ ]:

```
# Generating 2d-data
random_generator = np.random.RandomState(42)
# Generating normal data
X_normal = random_generator.randn(2000, 2) * 0.5
X_normal = pd.DataFrame(X_normal, columns=["x1", "x2"])
X_normal["type"] = "normal"
# Generating outliers
X_outliers_1 = random_generator.uniform(low=-6, high=6, size=(78, 2))
X_outliers_2 = random_generator.uniform(low=-6, high=-3, size=(35, 2))
X_outliers = np.vstack([X_outliers_1, X_outliers_2])
X_outliers = pd.DataFrame(X_outliers, columns=["x1", "x2"])
X_outliers["R"] = X_outliers["R"] = np.sqrt(
X_outliers["x1"] ** 2 + X_outliers["x2"] ** 2
)
X_outliers = X_outliers[X_outliers["R"] > 3].drop(columns=["R"])
X_outliers["type"] = "anomaly"
# Full data
X_full = pd.concat([X_normal, X_outliers])
```

In [ ]:

```
plt.figure(figsize=(8, 8))
plt.scatter(X_outliers["x1"], X_outliers["x2"], c="r")
plt.scatter(X_normal["x1"], X_normal["x2"], c="g")
plt.xlabel("x1")
plt.ylabel("x2")
plt.legend(["outliers", "normal"])
plt.title("2d distribution");
```

In [ ]:

```
X_normal.shape, X_outliers.shape, X_full.shape
```

In [ ]:

```
%%time
MyIF = MyIsolationForest(X_full[["x1", "x2"]], 30)
```

In [ ]:

```
X_outliers.iloc[0, :]
```

In [ ]:

```
X_normal.iloc[0, :]
```

In [ ]:

```
%%time
aScore = []
for i in range(X_full.shape[0]):
depth = []
for iTree in MyIF:
depth.append(path_length(X_full.iloc[i, :], iTree, 0))
aScore.append(S(depth, X_full.shape[0]))
```

In [ ]:

```
X_full["aScore"] = aScore
```

In [ ]:

```
t = X_full["aScore"].quantile(0.95)
X_full["Outlier"] = X_full["aScore"].apply(
lambda x: -1 if x >= t else 1
) # -1 for outliers and 1 for normal object
```

In [ ]:

```
plt.hist(X_full["aScore"])
plt.xlabel("Anomaly Score");
```

In [ ]:

```
plt.figure(figsize=(10, 7))
plt.scatter(X_full["x1"], X_full["x2"], c=X_full["Outlier"])
plt.title("Detection outliers using MyIF")
plt.xlabel("x1")
plt.ylabel("x2");
```

In [ ]:

```
X_sample = X_full.sample(256)
plt.figure(figsize=(8, 8))
plt.scatter(
X_sample["x1"], X_sample["x2"], c=X_sample["type"].map({"normal": 1, "anomaly": -1})
)
plt.xlabel("x1")
plt.ylabel("x2")
plt.title("2d distribution of Sample (size=256)");
```

We won't develop our IsolationForest and will use sklearn's version with these improvements further.

In [ ]:

```
# Import IsolationForest
from sklearn.ensemble import IsolationForest
```

```
n_estimators - The number of base estimators in the ensemble, default=100.
max_sample - The number of samples from data to train each tree in the forest, default "auto" = min(256, n_samples)
max_features - The number of features from data to train each tree in the forest, default = 1.0 (all features)
bootstrap - bootstrap, default=False
contamination - The proportion of outliers in the data set, threshold, default = 0.1
```

We will test this implementation of IF on our 2-d dataset.

In [ ]:

```
isof = IsolationForest(random_state=77, n_jobs=4, contamination=0.05)
```

In [ ]:

```
%%time
isof.fit(X_full[["x1", "x2"]])
```

Very fast! How about the quality?

In [ ]:

```
# predictions
y_pred_full = isof.predict(X_full[["x1", "x2"]])
```

In [ ]:

```
X_full["Outlier_sk"] = y_pred_full
```

In [ ]:

```
plt.figure(figsize=(10, 7))
plt.scatter(X_full["x1"], X_full["x2"], c=X_full["Outlier_sk"])
plt.title("Detection outliers using sklearn.IF")
plt.xlabel("x1")
plt.ylabel("x2");
```

Image looks grate! Purple points are outliers which IsolationForest found.

In [ ]:

```
# count of detected outliers "-1"
X_full.iloc[2000:, 4].value_counts()
```

As we can see our IsolationForest found almost of outliers.

In [ ]:

```
from sklearn.ensemble import RandomForestClassifier
from sklearn.linear_model import LogisticRegression
from sklearn.model_selection import train_test_split
from sklearn.neighbors import LocalOutlierFactor
from sklearn.svm import OneClassSVM
from xgboost import XGBClassifier
pd.options.display.max_columns = 500
```

In [ ]:

```
data = pd.read_csv("creditcard.csv")
```

In [ ]:

```
data.head()
```

In [ ]:

```
data.describe()
```

In [ ]:

```
X = data.drop(columns=["Class"])
y = data["Class"]
```

In [ ]:

```
X_train, X_test, y_train, y_test = train_test_split(
X, y, test_size=0.3, random_state=17
)
```

In [ ]:

```
# Look at portion of fraud transactions
y.mean(), y_train.mean(), y_test.mean(), len(y[y == 1]), len(y), len(y_test), len(
y_test[y_test == 1]
)
```

In [ ]:

```
# supervised
rf = RandomForestClassifier(random_state=42, n_jobs=4)
lr = LogisticRegression(random_state=42)
xg = XGBClassifier(random_state=42, n_jobs=4)
# unsupervised
IF = IsolationForest(random_state=42, n_jobs=4, contamination=0.01, n_estimators=300)
LOF = LocalOutlierFactor(contamination=0.01, n_jobs=4)
```

In [ ]:

```
%%time
rf.fit(X_train, y_train)
```

In [ ]:

```
%%time
lr.fit(X_train, y_train)
```

In [ ]:

```
%%time
xg.fit(X_train, y_train)
```

In [ ]:

```
%%time
IF.fit(X_train, y_train)
```

In [ ]:

```
%%time
LOF.fit(X_train, y_train)
```

In [ ]:

```
rf_pred = rf.predict_proba(X_test)[:, 1]
lr_pred = lr.predict_proba(X_test)[:, 1]
xg_pred = xg.predict_proba(X_test)[:, 1]
IF_pred = IF.predict(X_test)
LOF_pred = LOF.fit_predict(X_test)
```

In [ ]:

```
X_test["true"] = y_test
X_test["IF_pred"] = IF_pred
X_test["LOF_pred"] = LOF_pred
X_test["xg_pred"] = xg_pred
X_test["rf_pred"] = rf_pred
X_test["lr_pred"] = lr_pred
```

Let's check how many fraud transactions found each algorithm:

In [ ]:

```
X_test[X_test["IF_pred"] == -1]["true"].value_counts()
```

In [ ]:

```
X_test[X_test["LOF_pred"] == -1]["true"].value_counts()
```

In [ ]:

```
X_test.sort_values(by="rf_pred", ascending=False)["true"].head(855).value_counts()
```

In [ ]:

```
X_test.sort_values(by="lr_pred", ascending=False)["true"].head(855).value_counts()
```

In [ ]:

```
X_test.sort_values(by="xg_pred", ascending=False)["true"].head(855).value_counts()
```

In the conclusion ot the tutorial I want to summarise everything about Isolation Forest. This algorithm has very simple idea of anomaly detection: it isolates anomalies rather than normal observations. Also Isolation Forest converges quickly with a small ensemble size, which enables it to detect anomalies with high efficiency.

If you want to learn more about Isolation Forest, I recommend reading the article from the authors of the algorithm:

http://cs.nju.edu.cn/zhouzh/zhouzh.files/publication/icdm08b.pdf

https://cs.nju.edu.cn/zhouzh/zhouzh.files/publication/tkdd11.pdf