Skip to content

rename TMAP -> tmap2 #21

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Merged
afloresep merged 2 commits into from
Mar 30, 2026
Merged

rename TMAP -> tmap2 #21

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
2 commits
Select commit Hold shift + click to select a range
9c5cfff
rename TMAP -> tmap2
afloresep Mar 30, 2026
e930da0
Merge branch 'master' into layout_generators
afloresep Mar 30, 2026
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
18 changes: 9 additions & 9 deletions README.md
View file
Open in desktop
Original file line number Diff line number Diff line change
@@ -1,4 +1,4 @@
[![Tests](https://github.com/afloresep/TMAP/actions/workflows/tests.yml/badge.svg)](https://github.com/afloresep/TMAP/actions/workflows/tests.yml)
[![Tests](https://github.com/afloresep/tmap2/actions/workflows/tests.yml/badge.svg)](https://github.com/afloresep/tmap2/actions/workflows/tests.yml)
[![PyPI](https://img.shields.io/pypi/v/tmap2)](https://pypi.org/project/tmap2/)
[![Python 3.11+](https://img.shields.io/badge/python-3.11+-blue.svg)](https://www.python.org/downloads/)

Expand Down Expand Up @@ -26,9 +26,9 @@ For example, in a TMAP of pet breed images, following the branch from terriers t
Because the layout is a tree, you get operations that point clouds can't support:

```python
path = model.path(idx_a, idx_b) # nodes along the tree path
d = model.distance(idx_a, idx_b) # sum of edge weights along the path
pseudotime = model.distances_from(idx) # tree distance from one point to all others
path = model.path(idx_a, idx_b) # nodes along the tree path
d = model.distance(idx_a, idx_b # sum of edge weights along the path
pseudotime = model.distances_from(idx) # tree distance from one point to all others
```

## Installation
Expand All @@ -40,7 +40,7 @@ pip install tmap2
Optional extras:

```bash
pip install rdkit # chemistry helpers (fingerprints_from_smiles, molecular_properties)
pip install rdkit # chemistry helpers (fingerprints_from_smiles, molecular_properties)
pip install jupyter-scatter # notebook interactive widgets
```

Expand Down Expand Up @@ -81,9 +81,9 @@ model.plot(color_by="label", data=df, tooltip_properties=["name", "score"])

## Visualization

**Interactive HTML** — lasso selection, light/dark theme, filter and search panels, pinned metadata cards, binary mode for large datasets.
**Interactive HTML**: lasso selection, light/dark theme, filter and search panels, pinned metadata cards, binary mode for large datasets.

**Notebook widgets** — color switching, categorical filtering, and lasso selection with pandas-backed metadata:
**Notebook widgets**: color switching, categorical filtering, and lasso selection with pandas-backed metadata:

```python
viz = model.to_tmapviz()
Expand Down Expand Up @@ -145,8 +145,8 @@ Your Data
## Development

```bash
git clone https://github.com/afloresep/TMAP.git
cd TMAP
git clone https://github.com/afloresep/tmap2.git
cd tmap2
pip install ".[dev]"
pytest -v
```
Expand Down
6 changes: 3 additions & 3 deletions pyproject.toml
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -50,9 +50,9 @@ dev = [
]

[project.urls]
Homepage = "https://github.com/afloresep/TMAP"
Documentation = "https://github.com/afloresep/TMAP#readme"
Repository = "https://github.com/afloresep/TMAP"
Homepage = "https://github.com/afloresep/tmap2"
Documentation = "https://github.com/afloresep/tmap2#readme"
Repository = "https://github.com/afloresep/tmap2"

[tool.scikit-build]
wheel.packages = ["src/tmap"]
Expand Down