Table 2 iVirus-powered apps on KBase and CyVerse.
From: iVirus 2.0: Cyberinfrastructure-supported tools and data to power DNA virus ecology
App name | Virus ecogenomics processing stage | Availability | iVirus Version | Reference |
|---|---|---|---|---|
vConTACTa | Virus Classification | CyVerse | 1, 2 | Bolduc [45] |
vConTACT-PCs | Virus Classification | CyVerse | 1, 2 | Bolduc [34] |
vConTACT2 | Virus Classification | CyVerse/KBase | 2 | Jang [30] |
BowtieBatch | Read mapping | CyVerse | 1, 2 | Bolduc [34] |
Read2RefMapper | Read mapping | CyVerse | 1, 2 | Bolduc et al. [45] |
VirSorter | Virus Identification | CyVerse/KBase | 1, 2 | Roux [44] |
VirSorter 2 | Virus Identification | CyVerse | 2 | Guo [47] |
PCPipe | Protein clustering | CyVerse | 1, 2 | Hurwitz [46] |
Fizkin | Community profiling | CyVerse | 1, 2 | Hurwitz [46] |
CheckV | Virus analysis | CyVerse | 2 | Nayfach [60] |
MArVD | Virus identification | CyVerse | 2 | Vik [53] |
MArVD2 | Virus identification | In development | 2 | Vik [54] |
Cenote-Taker2 | Annotation | CyVerse | 2 | Tisza [55] |
MetaPop | Population genetics | CyVerse | 2 | Gregory [22] |
VirMatcher | Virus-Host prediction | KBase | 2 | Gregory [63] |
DRAM-v | AMG identification and annotation | KBase | 2 | Shaffer [57] |
WIsH | Virus-Host prediction | CyVerse | 2 | Galiez [59] |
DeepVirFinder | Virus Identification | CyVerse | 2 | Ren [48] |
VIBRANTb | Virus Identification | CyVerse | 2 | Kieft [51] |
MARVEL | Virus Identification | CyVerse | 2 | Amgarten [49] |
