From: Comprehensive evaluation of structural variant genotyping methods based on long-read sequencing data
Category | cuteSV | LRcaller | Sniffles | SVJedi | VaPoR |
---|---|---|---|---|---|
Version | 1.0.11 | 0.2 | 1.0.12a | 1.1.0 | NA |
Aligner | minimap2, NGMLR | minimap2, NGMLR | minimap2, NGMLR | minimap2 | minimap2, NGMLR |
SV type | INSs, DELs, DUPs, INVs, TRAs | INSs, DELs, DUPs, INVs, TRAs | INSs, DELs, DUPs, INVs, TRAs | INSs, DELs, INVs, TRAs | INSs, DELs, DUPs, INVs |
Data type | CLR, CCS, ONT | CLR, CCS, ONT | CLR, CCS, ONT | CLR, ONT | CLR, CCS, ONT |
Input | REF, BAM, VCF | REF, BAM, VCF | BAM, VCF | REF, VCF, FASTA/FASTQ; PAF, VCF | REF, BAM, VCF/BED |
Output | 1 genotype | 5 genotypes | 1 genotype | 1 genotype | 1 genotype |