Table 2.
Comparison between SQANTI3 and SQANTI-reads
| Feature | SQANTI3 | SQANTI-reads |
|---|---|---|
| Sequences analyzed | Transcript models | Reads |
| Annotation with SQANTI3 categories | Yes, for transcript models | Yes, for reads and ujcs |
| Computation of SQANTI3 quality metrics | Yes | Yes |
| Samples processed | One | Multiple |
| Visualizations across samples | No | Yes |
| PCA analysis between samples | No | Yes |
| Summary of read counts (per gene, per UJC) | No | Yes |
| Donor/acceptor variation metrics | No | Yes |
| Identification of putative under-annotated genes | No | Yes |
| Identification of putative novel transcripts | No | Yes |
| Machine learning validation of transcript models | Yes | No |
| IsoAnnot annotation | Yes | No |
