LongHap: A read-based phasing tool for PacBio HiFi and Oxford Nanopore data that jointly phases SNVs, INDELs, and structural variants and can integrate the 5mC methylation signal already present in long reads.
- Phases more INDELs and SVs than existing read-based tools at lower error rates
- Optional methylation integration extends phase blocks (mean N50 584 kb vs. 443 kb on 38x HiFi HG002)
- Works with HiFi and ONT data
- Roughly 30× faster than MethPhaser
MgCod: Gene prediction for prokaryotic and phage genomes with stop codon reassignment. MgCod detects which genetic code a genome, or a segment of it, uses and applies the correct model automatically, including in crAssphage genomes that use multiple genetic codes.
