spatialrna 0.3.0.dev1__py3-none-any.whl → 0.3.0.dev2__py3-none-any.whl
This diff represents the content of publicly available package versions that have been released to one of the supported registries. The information contained in this diff is provided for informational purposes only and reflects changes between package versions as they appear in their respective public registries.
- spatialrna-0.3.0.dev2.dist-info/METADATA +57 -0
- {spatialrna-0.3.0.dev1.dist-info → spatialrna-0.3.0.dev2.dist-info}/RECORD +4 -4
- spatialrna-0.3.0.dev1.dist-info/METADATA +0 -34
- {spatialrna-0.3.0.dev1.dist-info → spatialrna-0.3.0.dev2.dist-info}/WHEEL +0 -0
- {spatialrna-0.3.0.dev1.dist-info → spatialrna-0.3.0.dev2.dist-info}/top_level.txt +0 -0
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Metadata-Version: 2.4
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Name: spatialrna
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Version: 0.3.0.dev2
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Summary: A package for spatial RNA graph data processing and analysis.
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Author: Ruqian Lyu
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Author-email: Anne Pan <anne.pan@svi.edu.au>
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License: MIT
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Classifier: Programming Language :: Python :: 3
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Classifier: Operating System :: OS Independent
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Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
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Requires-Python: >=3.10
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Description-Content-Type: text/markdown
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Requires-Dist: numpy
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Requires-Dist: pandas
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Requires-Dist: scipy
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Requires-Dist: zarr>=3
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Requires-Dist: numcodecs
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Requires-Dist: tqdm
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Requires-Dist: scikit-learn
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Requires-Dist: matplotlib
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Provides-Extra: gnn
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Requires-Dist: torch; extra == "gnn"
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Requires-Dist: torch_geometric; extra == "gnn"
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Provides-Extra: dev
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Requires-Dist: pytest; extra == "dev"
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# spatialrna
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A package that provides an easier interface for building graph data from spatial transcriptomics data.
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## Prerequisites
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Create a conda environment with Python >= 3.10:
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```bash
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conda create -n spatialrna python=3.10
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conda activate spatialrna
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```
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To use the graphs with GNN models, also install PyTorch and PyTorch Geometric matching your CUDA version (see the PyTorch and PyG installation guides).
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## Installation
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```bash
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pip install spatialrna
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```
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Development pre-release (0.3.x):
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```bash
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pip install --pre spatialrna
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```
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## Documentation
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Documentation is available at https://ruqianl.github.io/spatialrna_docs/
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spatialrna/readers.py,sha256=M-LlPpx4R3wfmXhs8XPHyraonWD2mzbBQOR2VJUSLPI,14010
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spatialrna/train_val.py,sha256=XGYCWvojxY4lAlcFt9HrDGIFAYQlRhnjUgO_ImntBWk,6307
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spatialrna/viz.py,sha256=t7NOWaHzgu1DLKWPk1piesVs7msxC7EoiLV4zAiI25Q,16113
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spatialrna-0.3.0.
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spatialrna-0.3.0.
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spatialrna-0.3.0.
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spatialrna-0.3.0.
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spatialrna-0.3.0.dev2.dist-info/METADATA,sha256=py53ZY3LKy4ABN4xT_6XFWSZAykc7ATuFSE4S9Hru2Q,1415
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spatialrna-0.3.0.dev2.dist-info/WHEEL,sha256=mOdXR9C3wMVov7cSY8PY-XCzo3SmmWCHvGQr5csJoao,91
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spatialrna-0.3.0.dev2.dist-info/top_level.txt,sha256=ut3eWOeVxuENQDeJnQpkMdZWj05UCaHadGGT1tdX3vU,11
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spatialrna-0.3.0.dev2.dist-info/RECORD,,
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Metadata-Version: 2.4
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Name: spatialrna
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Version: 0.3.0.dev1
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Summary: Spatial RNA graph data processing and analysis for iST (Xenium / Atera): graphs, GNN training / embedding, clustering, spatial maps.
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Author-email: Anne Pan <anne.pan@svi.edu.au>
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Classifier: Programming Language :: Python :: 3
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Classifier: Operating System :: OS Independent
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Classifier: Topic :: Scientific/Engineering :: Bio-Informatics
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Requires-Python: >=3.12
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Description-Content-Type: text/markdown
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Requires-Dist: numpy
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Requires-Dist: pandas
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Requires-Dist: scipy
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Requires-Dist: zarr>=3
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Requires-Dist: numcodecs
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Requires-Dist: tqdm
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Requires-Dist: scikit-learn
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Requires-Dist: matplotlib
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Provides-Extra: gnn
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Requires-Dist: torch; extra == "gnn"
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Requires-Dist: torch_geometric; extra == "gnn"
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Provides-Extra: dev
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Requires-Dist: pytest; extra == "dev"
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description = "A package for spatial RNA graph data processing and analysis."
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readme = "README.md"
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version = "0.3.0.dev1"
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authors = [{ name = "Anne Pan", email = "anne.pan@svi.edu.au" },{ name = "Ruqian Lyu" }]
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license = { text = "MIT" }
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requires-python = ">=3.12"
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[project.urls]
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Repository = "https://gitlab.svi.edu.au/biocellgen-public/spatialrna_pypi_public"
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Documentation = "https://ruqianl.github.io/spatialrna_docs/"
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