polars-bio - Genomic intervals and bioinformatics I/O
Perform genomic interval operations, read and write bioinformatics formats, process large datasets with streaming, and query genomic data with SQL.
Tags
Updated: 2026-09-28Capabilities
Typical Inputs
Typical Outputs
What this skill does
- Find overlapping intervals
- Count interval overlaps
- Find nearest intervals
- Merge genomic intervals
- Cluster genomic intervals
- Compute interval coverage
- Find interval complements
- Subtract overlapping intervals
- Read bioinformatics files
- Write bioinformatics files
- Scan large files lazily
- Query genomic data with SQL
- Compute read depth
- Register data tables
Inputs
- Polars DataFrames
- Genomic interval columns
- Bioinformatics files
- SQL queries
- Cloud storage paths
Outputs
- LazyFrames or DataFrames
- SQL query results
- Written bioinformatics files
- Registered SQL tables
Requirements
- Python environment
- polars-bio package