Table 1 Entourage’s features compared to other currently available virus discovery software. Blank cells indicate that the feature is not explicitly mentioned in the software manual
Feature | Entourage | VirusSeeker [13] | SURPI [14] | GATK PathSeq [15] | VirFind [16] | VIP [17] | Lazypipe [18] | Genome Detective [19] | VIRify [20] |
|---|---|---|---|---|---|---|---|---|---|
Functionalities | |||||||||
Read quality control | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | |
Background sequence subtraction | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ||
Read binning | ✓ | ✓ | ✓ | ✓ | ✓ | ||||
Sequence assembly: | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ||
pre-taxonomic identification | ✓ | ✓ | ✓ | ✓ | ✓ | ||||
post-taxonomic identification | ✓ | ✓ | |||||||
Target detection | ✓ | ✓ | ✓ | ||||||
Virus discovery | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
Intrasample variation profiling | ✓ | ||||||||
Input flexibility | |||||||||
Use raw reads as input | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | |
Use assembled sequence as input | ✓ | ✓ | ✓ | ||||||
Software execution | |||||||||
Batch processing | ✓ | ✓ | |||||||
Local execution | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ||