Starting a project
| Cell | Content | Example | |------|---------|---------| | A1 | Must be "1" (indicates matrix type) | 1 | | B1 | Total number of rows (bands/traits) | 13 | | C1 | Total number of columns (samples/OTUs) | 7 | | D1 | "0" (no missing data) or "1" (missing present) | 0 |
| Limitation | Impact | |------------|--------| | | Cannot run natively on 64-bit Windows (requires emulation like WineVDM or virtual machine). | | Outdated graphics | No vector export (e.g., SVG), only Windows metafile. | | Limited data size | Maximum matrix size limited by DOS-era memory (typically ~200 objects × 50 characters in practice). | | No scripting/automation | All operations via GUI or batch file (very basic). | | No modern file formats | Cannot read Excel XLSX, only older XLS or CSV. | | Unmaintained | No updates since ~2000; bugs remain unfixed. | ntsys pc 2.02 software
Ordination (PCoA, PCA)
When hierarchical trees oversimplify complex genetic structures, ordination techniques project the data into multidimensional space. Starting a project | Cell | Content |
Input: The similarity matrix. Command: SAHN /CLUSTER UPGMA /MATRIX SIM.DAT /OUTPUT TREE.DAT Output: A tree file suitable for dendrogram plotting.
Before any multivariate calculations can happen, raw data must be correctly structured. The software utilizes a dedicated helper program called . | | No scripting/automation | All operations via
NTSYSpc 2.02 is a legacy program. Its user interface mirrors older Windows design principles, and it lacks the automated pipeline capabilities of modern scripting languages.
Before clustering, distances must be calculated. The software supports a wide array of coefficients. In version 2.02, researchers most frequently utilized the Jaccard coefficient and the Dice (similarity) coefficient for binary molecular data, as well as Euclidean distances for quantitative data.
Researchers used NTSYS-pc 2.02 to analyze 20 SSR markers across 11 Eucalyptus clones. The UPGMA dendrogram generated by the software categorized the clones into two major clusters, with further subdivisions revealing close relationships between specific clones.