arboreto
Infers candidate gene regulatory networks from bulk or single-cell expression data using AertsLab Arboreto GRNBoost2 and GENIE3. Use for transcription factor-target association ranking, compatible Dask execution, sparse expression inputs, and network stability checks.
- Version
- 1.3
- License
- BSD-3-Clause license
- Compatibility
- Requires the isolated Python 3.11 compatibility stack below, including Arboreto, Dask/distributed, NumPy, pandas, scikit-learn and SciPy. Network access is needed for installation, not local inference. No credentials required.
Pinned to revision 68105dd992f1, so it is the text this page describes rather than whatever the author pushed since.
Files
- skills/arboreto/SKILL.md
- skills/arboreto/SKILL_CN.md
- skills/arboreto/references/algorithms.md
- skills/arboreto/references/basic_inference.md
- skills/arboreto/references/distributed_computing.md
- skills/arboreto/scripts/basic_grn_inference.py
Every link opens the file at its source, pinned to the revision this page describes.