| name | bio-fragment-analysis |
| description | Analyzes cfDNA fragment size distributions and fragmentomics features using FinaleToolkit or Griffin. Extracts nucleosome positioning patterns, fragment ratios, and DELFI-style fragmentation profiles for cancer detection. Use when leveraging fragment patterns for tumor detection or tissue-of-origin analysis. |
| tool_type | python |
| primary_tool | FinaleToolkit |
Version Compatibility
Reference examples tested with: numpy 1.26+, pandas 2.2+, pysam 0.22+
Before using code patterns, verify installed versions match. If versions differ:
- Python:
pip show <package> then help(module.function) to check signatures
If code throws ImportError, AttributeError, or TypeError, introspect the installed
package and adapt the example to match the actual API rather than retrying.
Fragment Analysis
"Analyze cfDNA fragment patterns for cancer detection" → Extract fragmentomics features (size distributions, nucleosome positioning, DELFI profiles) from cfDNA for tumor detection and tissue-of-origin analysis.
- Python:
FinaleToolkit or Griffin for fragment feature extraction
- Python:
pysam for custom fragmentomics analysis
Analyze cfDNA fragmentomics for cancer detection and characterization.
Tool Selection
