Are you looking for great tools to analyze your HiFi data?
aardvark- Small variant, structural variant, and tandem repeat benchmarking toolhificnv– Copy number variant caller and depth visualization utilityhiphase– Small variant, structural variant, and short tandem repeat phasing toolisoseq– Scalable De Novo Isoform Discoverymethbat– Battery of methylation toolsmitorsaw- Mitochondrial variant calling and heteroplasmy detectionowl– Microsatellite instability measurespangu– Star-typer for long-read PGx applicationsparaphase– Caller for highly homologous genespbaa– Amplicon Analysispbfusion– Fusion gene caller for Iso-Seq sequencing data.pbmm2– A minimap2 frontend for PacBio native data formatspbsv– Structural variant calling and analysis toolspbtk– PacBio BAM toolkitsawfish– Joint structural variant and copy number variant caller for HiFi sequencing dataskera– Kinnex HiFi read splitterstarphase– Phase-aware pharmacogenomic diplotypersvpack– Filtering, comparing, and annotating structural varianttrgt– Tandem repeat genotyping and visualization
How about complete workflows for your HiFi data?
- Amplicon Workflow
- Full-length 16S analysis - Full-length 16S sequences to report
- Metagenomic analyses
- PacBio Pipelines – Common Tasks and Workflows
- Target enrichment workflow
- HiFi somatic WDL - Call somatic variants on tumor/normal WGS data
Help pages for tools that are running on our long-read platform?
This list is work in progress, check out our repositories for more greatness!
