Skip to main content

Table 1 Comparison of identified variants from Freebayes and GATK

From: A computational framework for improving genetic variants identification from 5,061 sheep sequencing data

Var type

Var source

Raw (%concordance)

FIV (%concordance)

SNP

Concordant

27,236

3,653

 

GATK

41,773 (65.20%)

4,705 (77.64%)

 

Freebayes

58,439 (46.61%)

4,651 (78.54%)

Indel

Concordant

7,345

1,935

 

GATK

28,992 (25.33%)

3,703 (52.25%)

 

Freebayes

31,373 (23.41%)

5,218 (37.08%)

Back to article page

Journal of Animal Science and Biotechnology

ISSN: 2049-1891