opencode-skills-collection 4.0.52 → 4.0.54

package/bundled-skills/scikit-learn/references/detailed-guide.md

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+# Scikit-learn - Detailed Guide
+
+> This file contains the detailed procedure and reference material extracted from `SKILL.md` for focused loading. The root skill defines activation, examples, safety constraints, and limitations.
+
+## Overview
+
+This skill provides comprehensive guidance for machine learning tasks using scikit-learn, the industry-standard Python library for classical machine learning. Use this skill for classification, regression, clustering, dimensionality reduction, preprocessing, model evaluation, and building production-ready ML pipelines.
+
+
+## Installation
+
+```bash
+# Install scikit-learn using uv
+uv uv pip install scikit-learn
+
+# Optional: Install visualization dependencies
+uv uv pip install matplotlib seaborn
+
+# Commonly used with
+uv uv pip install pandas numpy
+```
+
+
+## Quick Start
+
+### Classification Example
+
+```python
+from sklearn.model_selection import train_test_split
+from sklearn.preprocessing import StandardScaler
+from sklearn.ensemble import RandomForestClassifier
+from sklearn.metrics import classification_report
+
+# Split data
+X_train, X_test, y_train, y_test = train_test_split(
+    X, y, test_size=0.2, stratify=y, random_state=42
+)
+
+# Preprocess
+scaler = StandardScaler()
+X_train_scaled = scaler.fit_transform(X_train)
+X_test_scaled = scaler.transform(X_test)
+
+# Train model
+model = RandomForestClassifier(n_estimators=100, random_state=42)
+model.fit(X_train_scaled, y_train)
+
+# Evaluate
+y_pred = model.predict(X_test_scaled)
+print(classification_report(y_test, y_pred))
+```
+
+### Complete Pipeline with Mixed Data
+
+```python
+from sklearn.pipeline import Pipeline
+from sklearn.compose import ColumnTransformer
+from sklearn.preprocessing import StandardScaler, OneHotEncoder
+from sklearn.impute import SimpleImputer
+from sklearn.ensemble import GradientBoostingClassifier
+
+# Define feature types
+numeric_features = ['age', 'income']
+categorical_features = ['gender', 'occupation']
+
+# Create preprocessing pipelines
+numeric_transformer = Pipeline([
+    ('imputer', SimpleImputer(strategy='median')),
+    ('scaler', StandardScaler())
+])
+
+categorical_transformer = Pipeline([
+    ('imputer', SimpleImputer(strategy='most_frequent')),
+    ('onehot', OneHotEncoder(handle_unknown='ignore'))
+])
+
+# Combine transformers
+preprocessor = ColumnTransformer([
+    ('num', numeric_transformer, numeric_features),
+    ('cat', categorical_transformer, categorical_features)
+])
+
+# Full pipeline
+model = Pipeline([
+    ('preprocessor', preprocessor),
+    ('classifier', GradientBoostingClassifier(random_state=42))
+])
+
+# Fit and predict
+model.fit(X_train, y_train)
+y_pred = model.predict(X_test)
+```
+
+
+## Core Capabilities
+
+### 1. Supervised Learning
+
+Comprehensive algorithms for classification and regression tasks.
+
+**Key algorithms:**
+- **Linear models**: Logistic Regression, Linear Regression, Ridge, Lasso, ElasticNet
+- **Tree-based**: Decision Trees, Random Forest, Gradient Boosting
+- **Support Vector Machines**: SVC, SVR with various kernels
+- **Ensemble methods**: AdaBoost, Voting, Stacking
+- **Neural Networks**: MLPClassifier, MLPRegressor
+- **Others**: Naive Bayes, K-Nearest Neighbors
+
+**When to use:**
+- Classification: Predicting discrete categories (spam detection, image classification, fraud detection)
+- Regression: Predicting continuous values (price prediction, demand forecasting)
+
+**See:** `references/supervised_learning.md` for detailed algorithm documentation, parameters, and usage examples.
+
+### 2. Unsupervised Learning
+
+Discover patterns in unlabeled data through clustering and dimensionality reduction.
+
+**Clustering algorithms:**
+- **Partition-based**: K-Means, MiniBatchKMeans
+- **Density-based**: DBSCAN, HDBSCAN, OPTICS
+- **Hierarchical**: AgglomerativeClustering
+- **Probabilistic**: Gaussian Mixture Models
+- **Others**: MeanShift, SpectralClustering, BIRCH
+
+**Dimensionality reduction:**
+- **Linear**: PCA, TruncatedSVD, NMF
+- **Manifold learning**: t-SNE, UMAP, Isomap, LLE
+- **Feature extraction**: FastICA, LatentDirichletAllocation
+
+**When to use:**
+- Customer segmentation, anomaly detection, data visualization
+- Reducing feature dimensions, exploratory data analysis
+- Topic modeling, image compression
+
+**See:** `references/unsupervised_learning.md` for detailed documentation.
+
+### 3. Model Evaluation and Selection
+
+Tools for robust model evaluation, cross-validation, and hyperparameter tuning.
+
+**Cross-validation strategies:**
+- KFold, StratifiedKFold (classification)
+- TimeSeriesSplit (temporal data)
+- GroupKFold (grouped samples)
+
+**Hyperparameter tuning:**
+- GridSearchCV (exhaustive search)
+- RandomizedSearchCV (random sampling)
+- HalvingGridSearchCV (successive halving)
+
+**Metrics:**
+- **Classification**: accuracy, precision, recall, F1-score, ROC AUC, confusion matrix
+- **Regression**: MSE, RMSE, MAE, R², MAPE
+- **Clustering**: silhouette score, Calinski-Harabasz, Davies-Bouldin
+
+**When to use:**
+- Comparing model performance objectively
+- Finding optimal hyperparameters
+- Preventing overfitting through cross-validation
+- Understanding model behavior with learning curves
+
+**See:** `references/model_evaluation.md` for comprehensive metrics and tuning strategies.
+
+### 4. Data Preprocessing
+
+Transform raw data into formats suitable for machine learning.
+
+**Scaling and normalization:**
+- StandardScaler (zero mean, unit variance)
+- MinMaxScaler (bounded range)
+- RobustScaler (robust to outliers)
+- Normalizer (sample-wise normalization)
+
+**Encoding categorical variables:**
+- OneHotEncoder (nominal categories)
+- OrdinalEncoder (ordered categories)
+- LabelEncoder (target encoding)
+
+**Handling missing values:**
+- SimpleImputer (mean, median, most frequent)
+- KNNImputer (k-nearest neighbors)
+- IterativeImputer (multivariate imputation)
+
+**Feature engineering:**
+- PolynomialFeatures (interaction terms)
+- KBinsDiscretizer (binning)
+- Feature selection (RFE, SelectKBest, SelectFromModel)
+
+**When to use:**
+- Before training any algorithm that requires scaled features (SVM, KNN, Neural Networks)
+- Converting categorical variables to numeric format
+- Handling missing data systematically
+- Creating non-linear features for linear models
+
+**See:** `references/preprocessing.md` for detailed preprocessing techniques.
+
+### 5. Pipelines and Composition
+
+Build reproducible, production-ready ML workflows.
+
+**Key components:**
+- **Pipeline**: Chain transformers and estimators sequentially
+- **ColumnTransformer**: Apply different preprocessing to different columns
+- **FeatureUnion**: Combine multiple transformers in parallel
+- **TransformedTargetRegressor**: Transform target variable
+
+**Benefits:**
+- Prevents data leakage in cross-validation
+- Simplifies code and improves maintainability
+- Enables joint hyperparameter tuning
+- Ensures consistency between training and prediction
+
+**When to use:**
+- Always use Pipelines for production workflows
+- When mixing numerical and categorical features (use ColumnTransformer)
+- When performing cross-validation with preprocessing steps
+- When hyperparameter tuning includes preprocessing parameters
+
+**See:** `references/pipelines_and_composition.md` for comprehensive pipeline patterns.
+
+
+## Reference Documentation
+
+This skill includes comprehensive reference files for deep dives into specific topics:
+
+### Quick Reference
+**File:** `references/quick_reference.md`
+- Common import patterns and installation instructions
+- Quick workflow templates for common tasks
+- Algorithm selection cheat sheets
+- Common patterns and gotchas
+- Performance optimization tips
+
+### Supervised Learning
+**File:** `references/supervised_learning.md`
+- Linear models (regression and classification)
+- Support Vector Machines
+- Decision Trees and ensemble methods
+- K-Nearest Neighbors, Naive Bayes, Neural Networks
+- Algorithm selection guide
+
+### Unsupervised Learning
+**File:** `references/unsupervised_learning.md`
+- All clustering algorithms with parameters and use cases
+- Dimensionality reduction techniques
+- Outlier and novelty detection
+- Gaussian Mixture Models
+- Method selection guide
+
+### Model Evaluation
+**File:** `references/model_evaluation.md`
+- Cross-validation strategies
+- Hyperparameter tuning methods
+- Classification, regression, and clustering metrics
+- Learning and validation curves
+- Best practices for model selection
+
+### Preprocessing
+**File:** `references/preprocessing.md`
+- Feature scaling and normalization
+- Encoding categorical variables
+- Missing value imputation
+- Feature engineering techniques
+- Custom transformers
+
+### Pipelines and Composition
+**File:** `references/pipelines_and_composition.md`
+- Pipeline construction and usage
+- ColumnTransformer for mixed data types
+- FeatureUnion for parallel transformations
+- Complete end-to-end examples
+- Best practices
+
+
+## Common Workflows
+
+### Building a Classification Model
+
+1. **Load and explore data**
+   ```python
+   import pandas as pd
+   df = pd.read_csv('data.csv')
+   X = df.drop('target', axis=1)
+   y = df['target']
+   ```
+
+2. **Split data with stratification**
+   ```python
+   from sklearn.model_selection import train_test_split
+   X_train, X_test, y_train, y_test = train_test_split(
+       X, y, test_size=0.2, stratify=y, random_state=42
+   )
+   ```
+
+3. **Create preprocessing pipeline**
+   ```python
+   from sklearn.pipeline import Pipeline
+   from sklearn.preprocessing import StandardScaler
+   from sklearn.compose import ColumnTransformer
+
+   # Handle numeric and categorical features separately
+   preprocessor = ColumnTransformer([
+       ('num', StandardScaler(), numeric_features),
+       ('cat', OneHotEncoder(), categorical_features)
+   ])
+   ```
+
+4. **Build complete pipeline**
+   ```python
+   model = Pipeline([
+       ('preprocessor', preprocessor),
+       ('classifier', RandomForestClassifier(random_state=42))
+   ])
+   ```
+
+5. **Tune hyperparameters**
+   ```python
+   from sklearn.model_selection import GridSearchCV
+
+   param_grid = {
+       'classifier__n_estimators': [100, 200],
+       'classifier__max_depth': [10, 20, None]
+   }
+
+   grid_search = GridSearchCV(model, param_grid, cv=5)
+   grid_search.fit(X_train, y_train)
+   ```
+
+6. **Evaluate on test set**
+   ```python
+   from sklearn.metrics import classification_report
+
+   best_model = grid_search.best_estimator_
+   y_pred = best_model.predict(X_test)
+   print(classification_report(y_test, y_pred))
+   ```
+
+### Performing Clustering Analysis
+
+1. **Preprocess data**
+   ```python
+   from sklearn.preprocessing import StandardScaler
+
+   scaler = StandardScaler()
+   X_scaled = scaler.fit_transform(X)
+   ```
+
+2. **Find optimal number of clusters**
+   ```python
+   from sklearn.cluster import KMeans
+   from sklearn.metrics import silhouette_score
+
+   scores = []
+   for k in range(2, 11):
+       kmeans = KMeans(n_clusters=k, random_state=42)
+       labels = kmeans.fit_predict(X_scaled)
+       scores.append(silhouette_score(X_scaled, labels))
+
+   optimal_k = range(2, 11)[np.argmax(scores)]
+   ```
+
+3. **Apply clustering**
+   ```python
+   model = KMeans(n_clusters=optimal_k, random_state=42)
+   labels = model.fit_predict(X_scaled)
+   ```
+
+4. **Visualize with dimensionality reduction**
+   ```python
+   from sklearn.decomposition import PCA
+
+   pca = PCA(n_components=2)
+   X_2d = pca.fit_transform(X_scaled)
+
+   plt.scatter(X_2d[:, 0], X_2d[:, 1], c=labels, cmap='viridis')
+   ```
+
+
+## Best Practices
+
+### Always Use Pipelines
+Pipelines prevent data leakage and ensure consistency:
+```python
+# Good: Preprocessing in pipeline
+pipeline = Pipeline([
+    ('scaler', StandardScaler()),
+    ('model', LogisticRegression())
+])
+
+# Bad: Preprocessing outside (can leak information)
+X_scaled = StandardScaler().fit_transform(X)
+```
+
+### Fit on Training Data Only
+Never fit on test data:
+```python
+# Good
+scaler = StandardScaler()
+X_train_scaled = scaler.fit_transform(X_train)
+X_test_scaled = scaler.transform(X_test)  # Only transform
+
+# Bad
+scaler = StandardScaler()
+X_all_scaled = scaler.fit_transform(np.vstack([X_train, X_test]))
+```
+
+### Use Stratified Splitting for Classification
+Preserve class distribution:
+```python
+X_train, X_test, y_train, y_test = train_test_split(
+    X, y, test_size=0.2, stratify=y, random_state=42
+)
+```
+
+### Set Random State for Reproducibility
+```python
+model = RandomForestClassifier(n_estimators=100, random_state=42)
+```
+
+### Choose Appropriate Metrics
+- Balanced data: Accuracy, F1-score
+- Imbalanced data: Precision, Recall, ROC AUC, Balanced Accuracy
+- Cost-sensitive: Define custom scorer
+
+### Scale Features When Required
+Algorithms requiring feature scaling:
+- SVM, KNN, Neural Networks
+- PCA, Linear/Logistic Regression with regularization
+- K-Means clustering
+
+Algorithms not requiring scaling:
+- Tree-based models (Decision Trees, Random Forest, Gradient Boosting)
+- Naive Bayes
+
+
+## Troubleshooting Common Issues
+
+### ConvergenceWarning
+**Issue:** Model didn't converge
+**Solution:** Increase `max_iter` or scale features
+```python
+model = LogisticRegression(max_iter=1000)
+```
+
+### Poor Performance on Test Set
+**Issue:** Overfitting
+**Solution:** Use regularization, cross-validation, or simpler model
+```python
+# Add regularization
+model = Ridge(alpha=1.0)
+
+# Use cross-validation
+scores = cross_val_score(model, X, y, cv=5)
+```
+
+### Memory Error with Large Datasets
+**Solution:** Use algorithms designed for large data
+```python
+# Use SGD for large datasets
+from sklearn.linear_model import SGDClassifier
+model = SGDClassifier()
+
+# Or MiniBatchKMeans for clustering
+from sklearn.cluster import MiniBatchKMeans
+model = MiniBatchKMeans(n_clusters=8, batch_size=100)
+```
+
+
+## Additional Resources
+
+- Official Documentation: https://scikit-learn.org/stable/
+- User Guide: https://scikit-learn.org/stable/user_guide.html
+- API Reference: https://scikit-learn.org/stable/api/index.html
+- Examples Gallery: https://scikit-learn.org/stable/auto_examples/index.html