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Table 1 Performance of the ContamFinder pipeline employing three different sequence similarity search tools compared to an all-vs-all blastx search

From: Parasite infection of public databases: a data mining approach to identify apicomplexan contaminations in animal genome and transcriptome assemblies

 

Assembly type

Assembly size

all-vs-all blastx search (BLAST+)

ContamFinder (BLAST+)

ContamFinder (RAPsearch2)

ContamFinder (GHOSTX)

Capra hircus (GAOJ01)

transcriptome

25.1 Mb

82 h 14 min

439 hits

15 h 57 min

418 hits

40 min

396 hits

25 min

405 hits

Odocoileus virginianus (AEGY01)

genome

14.3 Mb

36 h 9 min

127 hits

1 h 12 min

122 hits

8 min

104 hits

3 min

98 hits