Table 1 Comparison of BiomiX with single omics and multi omics integration tools
Tool name | Platform | Single omics analysis | Omics integration | Support in hidden factor identification | Parameters settings | Sample subpopulation | ||||
|---|---|---|---|---|---|---|---|---|---|---|
Transcriptome | Metabolome | Methylome | Bibliography | clinical data correlation | pathway analysis | |||||
BiomiX | Desktop application, R | Yes | Yes | Yes | Yes (MOFA) | Yes | Yes | Yes | Customizable from the main interface | Yes |
Nextflow + X-omics ACTION | Web | Yes | Yes | Yes | Yes (MOFA, SNF) | No | Yes | No | Specified in the command line/ Script | No |
(if additional modules are manually added) | ||||||||||
MixOMICS | Web, R | No | No | No | Yes (PLS, DIABLO) | No | No | No | Customizable from the main interface | No |
(Network and prediction analysis are available) | ||||||||||
iDEP | Web | Yes | No | No | No | Not applicable | Customizable from the main interface | No | ||
MetaboAnalyst | Web, R | No | Yes | No | No | Not applicable | Customizable from the main interface | No | ||