Deeply Integrated human Single-Cell Omics data
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DISCOtoolkit is an python package that allows users to access data and use the tools provided by the DISCO database. It provides the following functions:
- Filter and download DISCO data based on sample metadata and cell type information
- CELLiD: cell type annotation
- scEnrichment: geneset enrichment using DISCO DEGs
Dependency Requirements:
- Numpy >= 1.21.6
- Pandas >= 1.4.2
- Scanpy >= 1.9.3
- Scipy >= 1.8.0
- joblib >= 1.1.0
- pandarallel >= 1.6.5
Minimal installation:¶
The DISCOtoolkit can be easily installed in the current Python environment using pip
:
Installation guide:¶
we recommend to install miniconda first and install discotoolkit in virtual env
Note
Please add -U parameter to pip to install the latest version. pip install -U discotoolkit
Basic Usage¶
Example in Jupyter notebook.
Note
Please select disco as the kernel for running the jupyter notebook
Filter and download DISCO data¶
Cell Type Annotation using CELLiD¶
scEnrichment¶
Citation¶
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Last update:
October 24, 2024
Created: May 11, 2023
Created: May 11, 2023