Table 2

A comparison of the performance between the Rnnotator assembly and a single Velvet assembly.

Rnnotator (non-stranded)

Rnnotator

Velvet

Oases

Multiple-k

C. albicans SC5314


▪ Accuracy1

94.0

95.0

97.4

92.3

96.6

▪ Completeness2

81.9

80.4

66.7

79.9

85.9

▪ Contiguity3

58.4

58.0

46.6

47.9

37.3

▪ Gene fusions4

1.73

0.26

1.18

1.31

0.20


C. albicans WO1


▪ Accuracy

92.8

94.6

96.6

89.1

96.0

▪ Completeness

82.9

82.2

74.0

82.1

88.2

▪ Contiguity

59.1

59.4

43.3

48.6

48.7

▪ Gene fusions

2.06

0.65

1.38

1.61

0.46


1Accuracy is defined by the percentage of contigs that share at least 95% identity with the reference genome;

2Completeness is the percentage of known genes covered by the contigs to at least 80% of the gene length;

3Contiguity is the percentage of complete genes covered by a single contig over at least 80% of the gene length.

4Gene fusions are the percentage of contigs that contain more than 50% of two or more annotated genes.

Martin et al. BMC Genomics 2010 11:663   doi:10.1186/1471-2164-11-663

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