LINGER
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Download Latest Version (.zip)- Benchmk.py
- Compare.py
- LINGER_tr.py
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- perturb.py
- preprocess.py
- pseudo_bulk.py
- TF_activity.py
- dependency_links.txt
- PKG-INFO
- requires.txt
- SOURCES.txt
- top_level.txt
- LICENSE
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- setup.cfg
- setup.py
- mm10_label.txt
- adata_ATAC.png
- adata_RNA.png
- ATAC.png
- barcode_mm10.png
- Benchmark.md
- box_plot_ATF1_activity_0_Others.png
- box_plot_ATF1_expression_0_Others.png
- box_plot_ATF1_expression_CD56 (bright) NK cells_Others.png
- box_plot_ATF1_expression_CD56 (bright) NK cells_Others2.png
- box_plot_Erg_activity_1_Others.png
- box_plot_Erg_expression_1_Others.png
- Cancer.md
- data_opg-mouse-zz-parallel.ipynb
- data_opg_cancer.ipynb
- downstream.md
- driver.md
- driver_epi.png
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- Example_cancer.ipynb
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- feature_engineering.jpg
- feature_engineering.png
- genomemap.jpg
- GRN_head.png
- GRN_infer.md
- H1_E2F6_trans.jpg
- h5_input.md
- heatmap_activity.png
- heatmap_activity_mm10.png
- label.png
- label_PBMC.png
- LINGER.png
- metadata_ds.jpg
- module_result.png
- motifmatch.png
- original.png
- PBMC-new-test.md
- PBMC.md
- PBMCs_box_plot_ATF1_activity_CD56 (bright) NK cells_Others.png
- PBMCs_box_plot_ATF1_activity_CD56 (bright) NK cells_Others2.png
- PBMCs_heatmap_activity.png
- PBMCs_heatmap_activity2.png
- PBMCs_ttest.png
- perturb.md
- perturb.png
- post_network_processing.org
- POU5F1_KO_Diff_exp_Umap_NANOG.png
- POU5F1_KO_Diff_Umap_NANOG.png
- POU5F1_KO_Differentiation_Umap.png
- pvalue_all.png
- PWM.jpg
- RNA.png
- RNA_ds.jpg
- S_TG.png
- scNN.md
- scNN_newSpecies.md
- TFactivity.md
- trans_pr_curveMYC.png
- trans_roc_curveMYC.png
- ttest.png
- ttest_mm10.png
- tutorial2.md
- tvalue_all.png
- User_guide.md
- data_opg-mouse-zz-parallel.ipynb
- data_PBMC-parallel_memory.ipynb
- conti1_1024.yml
- data_opg_cancer.ipynb
- LINGER.PNG
- README.md
# Installation Guide
1. Get the code
git clone https://github.com/Durenlab/LINGER
Downloads the entire project code from GitHub to your computer.
cd LINGER
Moves into the project folder you just downloaded.
2. Official Install Script
Easy RecommendedPrerequisites
- Python 3 Python is required to use pip.
pip install LingerGRN==1.110
Installs the package published on PyPI directly β no need to clone the source.
After installing, open a new terminal and run the program's version command (e.g. --version) to confirm it worked.
Pulled directly from this repo's README.
3. Python
EasyPrerequisites
pip install LingerGRN==1.110
Installs the package published on PyPI directly β no need to clone the source.
If it runs without errors and prints output in the terminal, it worked.
Pulled directly from this repo's README.
// repository documentation
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