From: Visualization-based discovery and analysis of genomic aberrations in microarray data
Feature | ChARM View | Caryo-scope | TreeView (Karyosco pe) | SeeGH | CGH Analyzer | CGH Explorer | CGH PRO | CGH Miner |
---|---|---|---|---|---|---|---|---|
Platform | most platforms (Java-based) | most platforms (Java-based) | most platforms (Java-based) | Windows | most platforms (Java-based) | most platforms (Java-based) | Linux, Windows | Windows, Unix, Excel add-in |
Software availability | freely downloadab le with registration | freely downloadable | freely downloadable | freely downloadab le with registration | freely downloadable with registration | freely downloadable with registration | freely downloadab le | freely downloadable with registration |
Source-code license | GNU GPL | MIT license | GNU GPL | not available | freely downloadable | freely downloadable | GNU GPL | freely downloadable |
External software dependencies | none | none | none | requires MySQL database | none | none | MySQL, R | R |
Automatic statistical determination of single-array aberrations | Yes | No | No | No | No | Yes | Yes | Yes |
Statistical analysis of manually selected regions | Yes | No | No | No | Yes | Yes | No | No |
Simultaneous display of multiple experiments | Yes | No | No | No | Yes | Yes | Yes | Yes |
Statistical analysis of aberrations occurring in multiple experiments | No | No | No | No | Yes | No | No | No |
Aberration breakpoints/statistics export | Yes | No | No | No | Yes | Yes | Yes | Yes |
Image export | Yes | Yes | Yes | Yes | Yes | Yes | Yes | Yes |
Command-line statistical analysis feature | Yes | No | No | No | No | No | No | No |
Allows user-defined genomic feature annotation | Yes | Yes | Yes | Yes | Yes | Yes | Yes | Yes |
Web-linked genomic feature annotation | No | Yes | Yes | Yes | Yes | Yes | Yes | No |