Ecosyste.ms: Repos
An open API service providing repository metadata for many open source software ecosystems.
GitHub / 10XGenomics / janesick_nature_comms_2023_companion
Code companion to the publication "High resolution mapping of the breast cancer tumor microenvironment using integrated single cell, spatial and in situ analysis of FFPE tissue"
Stars: 7
Forks: 0
Open Issues: 1
License: other
Language: Jupyter Notebook
Repo Size: 7.91 MB
Dependencies:
79
Created: 7 months ago
Updated: 3 months ago
Last pushed: 6 months ago
Last synced: 3 months ago
Topics: insitu-data, registration, visium, visualization, xenium
Files
Loading...
Readme
Loading...
Dependencies
environment.yml
pypi
- anndata ==0.10.2
- annotated-types ==0.6.0
- array-api-compat ==1.4
- asttokens ==2.4.1
- backcall ==0.2.0
- comm ==0.1.4
- contourpy ==1.1.1
- cramjam ==2.7.0
- cycler ==0.12.1
- debugpy ==1.8.0
- decorator ==5.1.1
- exceptiongroup ==1.1.3
- executing ==2.0.0
- fastparquet ==2023.10.1
- fonttools ==4.43.1
- fsspec ==2023.10.0
- h5py ==3.10.0
- imagecodecs ==2023.9.18
- imageio ==2.31.6
- ipykernel ==6.26.0
- ipython ==8.16.1
- jedi ==0.19.1
- joblib ==1.3.2
- jupyter-client ==8.5.0
- jupyter-core ==5.4.0
- kiwisolver ==1.4.5
- lazy-loader ==0.3
- llvmlite ==0.41.1
- matplotlib ==3.8.0
- matplotlib-inline ==0.1.6
- natsort ==8.4.0
- nest-asyncio ==1.5.8
- networkx ==3.2
- numba ==0.58.1
- numpy ==1.26.1
- ome-types ==0.4.2
- opencv-python ==4.8.1.78
- packaging ==23.2
- pandas ==2.1.2
- parso ==0.8.3
- patsy ==0.5.3
- pexpect ==4.8.0
- pickleshare ==0.7.5
- pillow ==10.0.1
- platformdirs ==3.11.0
- prompt-toolkit ==3.0.39
- psutil ==5.9.6
- ptyprocess ==0.7.0
- pure-eval ==0.2.2
- pydantic ==2.4.2
- pydantic-core ==2.10.1
- pygments ==2.16.1
- pynndescent ==0.5.10
- pyparsing ==3.1.1
- python-dateutil ==2.8.2
- pytz ==2023.3.post1
- pyzmq ==25.1.1
- scanpy ==1.9.5
- scikit-image ==0.22.0
- scikit-learn ==1.3.2
- scipy ==1.11.3
- seaborn ==0.13.0
- session-info ==1.0.0
- shapely ==2.0.2
- six ==1.16.0
- stack-data ==0.6.3
- statsmodels ==0.14.0
- stdlib-list ==0.9.0
- tbb ==2021.10.0
- threadpoolctl ==3.2.0
- tifffile ==2023.9.26
- tornado ==6.3.3
- tqdm ==4.66.1
- traitlets ==5.12.0
- typing-extensions ==4.8.0
- tzdata ==2023.3
- umap-learn ==0.5.4
- wcwidth ==0.2.8
- xsdata ==23.8