gtars-overlaprs
High-performance genomic interval overlap operations in Rust.
Features
- Efficient interval intersection algorithms using AIList data structure
- Coverage calculations
- Support for large-scale genomic datasets
- Optimized memory usage
Usage
From Rust
use gtars_overlaprs::{AIList, Interval};
// Create an AIList from intervals
let mut ailist = AIList::new();
ailist.add(Interval::new(100, 200));
ailist.add(Interval::new(150, 250));
// Query overlaps
let overlaps = ailist.query(120, 180);
Data Structures
- AIList - Augmented Interval List for fast overlap queries
- Bits - Bit vector implementation for coverage calculations
- Overlapper - Trait for implementing overlap operations
Performance
Optimized for:
- Large BED files (millions of intervals)
- Fast overlap queries (logarithmic time)
- Memory efficiency through compact data structures