digit-bin-index 0.3.1

A high-performance, O(P) data structure for weighted random sampling of binned probabilities, ideal for large-scale simulations.

DigitBinIndex

A DigitBinIndex is a tree-based data structure designed for efficient weighted random selection and removal from large collections of items. It is optimized for scenarios involving millions of items where probabilities are approximate and high performance is critical, such as simulations for Wallenius' noncentral hypergeometric distribution or Fisher's noncentral hypergeometric distribution.

This library provides high-performance solutions for both major types of noncentral hypergeometric distributions:

• Sequential Sampling (Wallenius'): Modeled by select_and_remove, where items are selected and removed one at a time.
• Simultaneous Sampling (Fisher's): Modeled by select_many_and_remove, where a batch of unique items is selected and removed together.

The Core Problem

In simulations, forecasts, or statistical models (e.g., mortality models, Monte Carlo simulations, or machine learning sampling), managing a large, dynamic set of probabilities is common. A key task is to randomly select items based on their weights, often removing them afterward, and repeat this process efficiently. For datasets with millions of items, achieving high performance while maintaining reasonable accuracy is a significant challenge, especially for complex distributions like Wallenius' or Fisher's.

How It Works

DigitBinIndex is a radix tree that organizes items into bins based on the decimal digits of their rescaled probabilities, enabling fast weighted random selection and updates.

1. Digit-based Tree Structure: Each level of the tree corresponds to a decimal place of the rescaled weight. For example, a weight of 0.543 at precision 3 is rescaled to 543 and placed by traversing the path: root -> child[5] -> child[4] -> child[3].

2. Adaptive Bin Storage: Leaf nodes act as bins, storing item IDs in either a fast Vec<u32> (for small bins) or a compressed Roaring Bitmap (for large bins). The bin type is chosen automatically for optimal performance and memory use if a capacity hint is given.

3. Accumulated Value Index: Each node tracks the accumulated_value (sum of weights beneath it), supporting O(P) weighted random selection, where P is the configured precision (number of decimal places).

Features

• High Performance: Outperforms general-purpose data structures like Fenwick Trees for both sequential and simultaneous weighted sampling.
• Dual-Model Support: Optimized methods for Wallenius' (select_and_remove) and Fisher's (select_many_and_remove) distributions.
• O(P) Complexity: Core operations (add, remove, select) have a time complexity of O(P), where P is the fixed precision, effectively constant for a given configuration.
• Memory Efficiency: Combines a sparse radix tree with Roaring Bitmaps for efficient storage, especially for sparse or clustered weight distributions.
• Python Integration: Seamless Python bindings via pyo3 for cross-language support.

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Performance

DigitBinIndex trades a small, controllable amount of precision by binning probabilities to achieve significant performance gains. The following benchmarks compare DigitBinIndex against an optimized FenwickTree implementation in a realistic, high-churn simulation.

The benchmark scenario starts with a large population (1M or 10M items), then simulates a high volume of activity:

• Churn: A significant number of items are selected and removed.
• Acquisition: New items are added to the population.

This measures the real-world throughput of both data structures under dynamic conditions. The tests were run on a standard desktop (Intel i7, 16GB RAM, Rust 1.75).

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Wallenius' Draw (Sequential Churn)

This benchmark simulates sequential selection by removing 100,000 items one-by-one, then adding 110,000 new items. This is a common pattern in agent-based models or iterative simulations. DigitBinIndex's O(P) complexity gives it a decisive advantage as the population scales.

Scenario (N items)	DigitBinIndex Time	FenwickTree Time	Speedup Factor
1 Million Items (p=3)	~31.3 ms	~81.4 ms	~2.6x faster
1 Million Items (p=5)	~51.8 ms	~79.6 ms	~1.5x faster
10 Million Items (p=3)	~661.6 ms	~1727.7 ms	~2.6x faster

• Key Takeaway: DigitBinIndex is over 2.6 times faster than the FenwickTree for sequential operations on large datasets. Its performance is dependent on precision (P) and not the number of items (N), allowing it to scale far more effectively.

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Fisher's Draw (Batch Churn)

This benchmark simulates simultaneous selection by removing a large batch of 100,000 unique items at once, followed by the acquisition of 110,000 new items. DigitBinIndex uses a highly optimized batch rejection sampling method.

Scenario (N items)	DigitBinIndex Time	FenwickTree Time	Speedup Factor
1 Million Items (p=3)	~23.3 ms	~90.0 ms	~3.9x faster
1 Million Items (p=5)	~45.0 ms	~90.6 ms	~2.0x faster
10 Million Items (p=3)	~432.8 ms	~1556.1 ms	~3.6x faster

Key Takeaway: For batch selections, DigitBinIndex is even more efficient, performing up to 3.9 times faster. The batched nature of the operation further highlights the architectural advantages of the radix tree approach for this use case.

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When to Choose DigitBinIndex

Use DigitBinIndex when:

• You need high-performance sampling for Wallenius' or Fisher's distributions.
• Your dataset is large (N > 100,000).
• Probabilities are approximate, as is common in empirical data, simulations, or machine learning models.
• Performance is more critical than perfect precision.

Consider a Fenwick Tree if you require exact precision and your weights differ only at high decimal places (e.g., 0.12345 vs. 0.12346), though this comes at the cost of O(log N) complexity and higher memory usage for large datasets.

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Choosing a Precision

The precision parameter controls the radix tree's depth, balancing accuracy, performance, and memory. Higher precision improves sampling accuracy but increases memory usage (up to 10x per additional level) and slightly impacts runtime.

The Rule of Thumb

A precision of 3 or 4 (default: 3) is recommended for most applications. This captures sufficient detail for typical weight distributions while maintaining excellent performance and low memory usage.

The Mathematical Intuition

Each decimal place contributes exponentially less to a weight’s value. For a weight of 0.12345:

• 1st digit (1): 0.1
• 2nd digit (2): 0.02
• 3rd digit (3): 0.003
• 4th digit (4): 0.0004

Truncating at 3 digits limits the error per item to <0.001. In large populations, these errors average out, minimally affecting the selection distribution.

Guidance

Precision	Typical Use Case	Trade-offs
1-2	Maximum performance, minimal memory usage.	Best for coarse weights (e.g., 0.1, 0.5). Loses accuracy with fine-grained data.
3-4	Recommended Default. Optimal for most scenarios.	Captures sufficient detail for simulation or model data. Negligible performance/memory cost.
5+	High-fidelity scenarios with very close weights.	Distinguishes weights like 0.12345 vs. 0.12346. Increases memory (up to 10x per level) and slightly impacts performance.

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Maximum Item Capacity for DigitBinIndex

Since the identities used for individuals are u32, the current implementation limits the maxiumum capacity to 2^32 - 1 ≈ 4.29 billion.

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Usage & Installation

DigitBinIndex is available as a Python library on PyPI or as a Rust crate on Crates.io. Ensure Python 3.6+ for Python bindings or Rust 1.75+ for the Rust crate.

For Python 🐍

Install from PyPI:

pip install digit-bin-index

Example usage:

from digit_bin_index import DigitBinIndex

def main():
    # Create an index with precision 3 (default).
    index = DigitBinIndex()

    # With custom precision
    index_5 = DigitBinIndex.with_precision(5)

    # With custom precision and capacity hint for large datasets
    # This might choose a more memory-efficient internal storage.
    index_3_xl = DigitBinIndex.with_precision_and_capacity(3, 10_000_000)

    # Add items with IDs and weights.
    index.add(id=101, weight=0.123)  # Low weight
    index.add(id=202, weight=0.800)  # High weight
    index.add(id=303, weight=0.755)  # High weight
    index.add(id=404, weight=0.110)  # Low weight

    # Sequential (Wallenius') Draw: Select and remove one item.
    # Higher-weighted items (202, 303) are more likely.
    selected_item = index.select_and_remove()
    if selected_item:
        # The returned weight is a float, representing the bin's average weight
        item_id, weight = selected_item
        print(f"Wallenius draw: ID {item_id}, Weight ~{weight:.3f}")
    
    print(f"Items remaining: {index.count()}")  # 3

    # Simultaneous (Fisher's) Draw: Select and remove 2 unique items.
    selected_items = index.select_many_and_remove(2)
    if selected_items:
        print(f"Fisher's draw: {selected_items}")
    
    print(f"Items remaining: {index.count()}")  # 1

if __name__ == "__main__":
    main()

For Rust 🦀

Add to your Cargo.toml:

[dependencies]
digit-bin-index = "0.3.0" # Replace with the latest version from crates.io

Example usage:

use digit_bin_index::DigitBinIndex;

fn main() {
    // Create an index with precision 3.
    let mut index = DigitBinIndex::with_precision(3);

    // Add items with IDs and f64 weights.
    index.add(101, 0.123); // Low weight
    index.add(202, 0.800); // High weight
    index.add(303, 0.755); // High weight
    index.add(404, 0.110); // Low weight

    // Sequential (Wallenius') Draw: Select and remove one item.
    if let Some((id, weight)) = index.select_and_remove() {
        println!("Wallenius draw: ID {}, Weight ~{}", id, weight);
    }
    println!("Items remaining: {}", index.count()); // 3

    // Simultaneous (Fisher's) Draw: Select and remove 2 unique items.
    if let Some(items) = index.select_many_and_remove(2) {
        println!("Fisher's draw: {:?}", items);
    }
    println!("Items remaining: {}", index.count()); // 1
}

License

This project is licensed under the MIT License, a permissive open-source license allowing free use, modification, and distribution.