Table 1 Gene Structure Accuracy (Sn = sensitivity, Pr = precision) of BRAKER3 in the original publication by⁵, and BRAKER3 in the VARUS-BRAKER workflow (arthropods in bold).

Drosophila melanogaster

VARUS-BRAKER

87.85

90.31

61.19

83.11

84.16

95.43

BRAKER3

85.67

89.89

58.66

83.69

82.88

95.75

Bombus terrestris

VARUS-BRAKER

68.83

67.02

50.25

62.01

73.70

90.93

BRAKER3

72.51

66.34

52.53

60.08

78.56

90.10

Parasteatoda tepidariorum

VARUS-BRAKER

44.78

59.56

37.73

54.08

49.65

87.50

BRAKER3

48.64

59.63

42.14

54.05

58.53

86.70

Caenorhabditis elegans

VARUS-BRAKER

71.54

85.34

54.21

76.23

78.67

94.84

BRAKER3

68.22

85.54

51.86

77.64

75.25

95.45

Arabidopsis thaliana

VARUS-BRAKER

82.64

83.08

57.64

78.14

82.12

94.08

BRAKER3

81.80

87.23

57.01

83.85

81.72

95.80

Populus trichocarpa

VARUS-BRAKER

78.33

88.62

63.40

81.52

85.59

94.82

BRAKER3

77.75

88.31

63.08

82.00

85.08

94.99

Medicago truncatula

VARUS-BRAKER

50.56

72.95

50.56

65.56

77.71

88.46

BRAKER3

49.62

73.14

49.62

66.57

76.89

88.98

Danio rerio

VARUS-BRAKER

56.84

71.11

35.30

68.06

65.85

92.73

BRAKER3

56.91

66.60

35.83

58.23

65.15

90.79

Gallus gallus

VARUS-BRAKER

83.75

79.49

74.31

70.73

92.72

94.64

BRAKER3

84.87

79.57

75.95

70.07

93.92

94.52

Mus musculus

VARUS-BRAKER

72.11

83.15

72.11

80.39

77.77

97.62

BRAKER3

79.62

81.50

79.61

71.91

85.37

96.40

Solanum lycopersicum

VARUS-BRAKER

46.34

47.79

37.54

47.50

83.88

94.52

BRAKER3

46.90

60.37

46.90

54.72

75.87

85.37

Average

VARUS-BRAKER

67.51

78.71

51.43

72.39

74.82

92.55

BRAKER3

66.94

78.62

51.17

72.29

75.07

92.64