Table 2 SNP calling precision/recall test on data from human chromosome 20, compared to a gold standard coming from the “1000 genomes project”
From: Reference-free compression of high throughput sequencing data with a probabilistic de Bruijn graph
HG00096 chrom 20 | |||
|---|---|---|---|
Prog | Precision | Recall | Compression ratio |
lossless | 85.02 | 67.02 | 2.95 |
SCALCE | 85.15 | 66.13 | 4.1 |
FASTQZ | 85.46 | 66.63 | 5.4 |
LIBCSAM | 84.85 | 67.09 | 8.4 |
FQZCOMP | 85.09 | 66.61 | 8.9 |
LEON | 85.63 | 67.17 | 11.4 |
RQS | 85.59 | 67.15 | 12.4 |
no quality | 57.73 | 68.66 | - |