Table 4.
MOG compared to existing tools for exploratory analysis of expression data
| MOG | PIVOT | iSEE | iGEAK | IRIS-EDA | DEvis | |
|---|---|---|---|---|---|---|
| Reference | This paper | (15) | (18) | (16) | (17) | (102) |
| Year | 2019 | 2018 | 2018 | 2019 | 2019 | 2019 |
| Platform/GUI | Java/Swing | R/Shiny | R/Shiny | R/Shiny | R/Shiny | R/None |
| Interactive tables and trees | Yes | No | No | No | No | No |
| Interactive drag and drop operations | Yes | No | No | No | No | No |
| Interactive visualizations | Yes | Partial | Partial | Partial | Partial | No |
| Interactively subset data | Yes | Partial | Partial | Partial | No | No |
| Save progress | Yes | Yes | Partial (if user saves R code) | No | No | No |
| Use any R package | Yes | No | No | No | No | No |
| Supported data types | Omics or other numerical data | RNA-Seq/scRNA-Seq | Omics | RNA-Seq/microarray | RNA-Seq/scRNA-Seq | RNA-Seq |
| MW U test (sec.) | 7 | 1260 | NA | NA | NA | NA |
MOG’s GUI, designed with Java swing, is fully interactive; in contrast, other available tools are based on R and provide limited or no interactivity. A MOG user can execute any R package/script with interactively selected subsets of data if s/he wishes to perform additional analysis, whereas only a limited number of R-packages are available in the other tools. The last row compares the Mann–Whitney U test’s execution time for MOG and PIVOT using the liver tumor and non-tumor datasets (18 212 genes over 410 samples). A more detailed comparison of the tools is available in Supplementary File 8.