# Package Info
# Runtime Dependencies
| Package | Version Constraint | Environment Marker | Last Published | PyPI |
|----|----|----|----|----|
| `numpy` | -- | | 2026-08-09 | 
|
| `scipy` | -- | | 2026-08-21 | |
| `matplotlib` | -- | | 2026-07-18 | |
| `tqdm` | `==4.66.3` | | 2026-07-27 | |
| `ete3` | `==3.0.0b35` | | 2023-05-02 | |
| `pandas` | `>=0.25.3` | | 2026-07-22 | |
| `openpyxl` | `>=2.5.0` | | 2024-06-28 | |
| `pexpect` | `==4.4.0` | | 2023-11-25 | |
| `slacker` | `==0.9.42` | | 2020-02-15 | |
| `biopython` | `<1.86,>=1.85` | | 2026-08-06 | |
| `tablib` | `>=0.11.5` | | 2026-07-31 | |
| `mygene` | `>=3.0.0` | | 2021-04-05 | |
| `cookiecutter` | -- | | 2026-03-04 | |
| `Flask` | `<4,>=3.1.3` | | 2026-02-19 | |
| `Flask-Login` | -- | | 2023-10-30 | |
| `Flask-Mail` | -- | | 2024-05-23 | |
| `Flask-SQLAlchemy` | -- | | 2023-09-11 | |
| `Flask-WTF` | -- | | 2026-04-23 | |
| `treelib` | `==1.3.5` | | 2025-06-29 | |
| `psutil` | `>=5.6.7` | | 2026-01-28 | |
| `logzero` | `>=1.5.0` | | 2021-03-17 | |
| `legacy-cgi` | `>=2.6.4` | `python_version >= "3.13"` | 2025-10-27 | |
| `xmltodict` | `>=0.11.0` | | 2026-02-22 | |
| `plotly` | `>=3.10.0` | | 2026-08-25 | |
| `pyyaml` | `>=3.12` | | 2025-09-25 | |
| `werkzeug` | `>=3.1.6` | | 2026-04-02 | |
# Optional Dependencies
## `docs`
| Package | Version Constraint | Last Published | PyPI |
|----|----|----|----|
| `great-docs` | `==0.17.0` | 2026-08-13 | |
## `test`
| Package | Version Constraint | Last Published | PyPI |
|----|----|----|----|
| `pytest` | `<10,>=9.1.1` | 2026-06-19 | |
| `pytest-cov` | -- | 2026-03-21 | |
| `pytest-runner` | -- | 2023-12-04 | |
# Summary
- **Requires:** Python `>=3.11,<3.15`
- **Runtime Dependencies:** 26
- **Optional Dependencies:** 2 groups (4 unique packages)
- **Total unique dependencies:** 30