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Version 2.0 — Refactored with enhanced ML architecture
intronIC is a bioinformatics tool for extracting and classifying intron sequences as U12-type (minor) or U2-type (major) using a support vector machine trained on position-weight matrix scores.
- SVM-based classification with probability scores (0-100%)
- Pretrained models for immediate cross-species analysis
- Streaming mode for ~85% memory reduction on large genomes
- Parallel processing for improved performance
- YAML configuration for reproducible analysis pipelines
- Comprehensive metadata including phase, position, parent gene/transcript
Quick Start — Installation and first run Overview — Algorithm and classification basics Output Files — Understanding results Full Usage Info — Complete CLI reference
- Overview — Classification approach and basic usage
- Quick start — Installation and testing
- Technical Details — Algorithm and data flow
- Data filtering notes — Filtering criteria and tags
- Output files — File formats and columns
- Training data and PWMs — Reference data and matrices
- Example usage — Common use cases
- Full usage info — Complete argument reference
- About — Background and motivation
If you use intronIC in your research, please cite:
Moyer DC, Larue GE, Hershberger CE, Roy SW, Padgett RA. (2020) Comprehensive database and evolutionary dynamics of U12-type introns. Nucleic Acids Research 48(13):7066–7078. doi:10.1093/nar/gkaa464