Table 1 Features required for integrative analysis
Features required for integrative analysis | Nexus CGH | CGH Fusion | ISA-CGH | VAMP | *CGH Analytics | MD-SeeGH | SIGMA | SIGMA 2 |
|---|---|---|---|---|---|---|---|---|
Built-in segmentation for array CGH | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | |
Consensus calling using multiple segmentation algorithms | ✓ | |||||||
Array platform-independent combined CGH analysis | ✓ | ✓ | ✓ | |||||
Custom microarray data handling | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | |
Basic copy number and expression integration | ✓ | ✓ | ✓ | ✓ | ||||
Alignment and analysis of genetic and epigenetic data | ✓ | ✓ | ✓ | |||||
Multi-dimensional visualization of genetic, epigenetic and gene expression data | ✓ | |||||||
Two group statistical comparison | ✓ | ✓ | ✓ | ✓ | ||||
Two group combinatorial gene dosage and gene expression comparison | ✓ | |||||||
Linking to external biological databases | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |
Linking to external gene expression (GEOProfiles) | ✓ | |||||||
Context-based visualization of genome features | ✓ | ✓ | ✓ | ✓ | ✓ | |||
Conversion of data between different genome assemblies | ✓ | ✓ | ✓ | ✓ | ||||
Free for academic/research use | ✓ | ✓ | ✓ | ✓ | ✓ | ✓ |