Description

Clair3 is a germline small variant caller for long-reads

Input

Name
Description
Pattern

0 ()

1 ()

2 ()

3 ()

4 ()

0 ()

1 ()

0 ()

1 ()

Output

Name
Description
Pattern

vcf ()

tbi ()

phased_vcf ()

phased_tbi ()

versions ()

Tools

clair3 Documentation

Clair3 is a small variant caller for long-reads. Compare to PEPPER (r0.4), Clair3 (v0.1) shows a better SNP F1-score with ≤30-fold of ONT data (precisionFDA Truth Challenge V2), and a better Indel F1-score, while runs generally four times faster. Clair3 makes the best of both worlds of using pileup or full-alignment as input for deep-learning based long-read small variant calling. Clair3 is simple and modular for easy deployment and integration.

doi: 10.1038/s43588-022-00387-xLicense: BSD-3-clause
Authors