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Table 5 Overall statistics for TIS changes

From: eCAMBer: efficient support for large-scale comparative analysis of multiple bacterial strains

 

PATRIC

Prodigal

Statistic

MA

eCAMBer

GMV

MA

eCAMBer

# of incorrect →correct

839

392

47

132

89

TIS changes

     

# of incorrect →incorrect

215

50

5

96

8

TIS changes

     

# of correct →incorrect

892

92

8

672

12

TIS changes

     
  1. Overall statistics for TIS changes introduced by eCAMBer, Mugsy-Annotator (MA) and the GMV pipeline. The tools were run on the dataset of 20 E. coli with annotations from the PATRIC database (columns 2 to 3) and generated using Prodigal (columns 4 to 6). Correctness of the changes introduced was assessed by comparison them against the set of experimentally verified gene annotations available in the EcoGene 3 database for the K-12 MG1655 strain. Gold standard annotations for the remaining 19 strains were obtained by homology transfer of that set of 918 annotations. Statistic presented in this table include only that subset of genes which share the same stop codon as any of the genes in the gold standard.
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BMC Bioinformatics

ISSN: 1471-2105

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