This repository aims to provide an interactive Python tutorial for protein clustering conducted in SwimpProteomics.
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You need Python>=3.6
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Run
pip install pandas leidenalg ipykernel tqdm -
Put your TMT data into ./data
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Run main.ipynb
[1] Genetic Disruption of WASHC4 Drives Endo-lysosomal Dysfunction and Cognitive-Movement Impairments in Mice and Humans. Courtland J.L., Bradshaw T.W.A., Waitt G., Soderblom E., Ho T., Rajab A., Vancini R., Kim I.H., Soderling S.H. (2021). eLife; 10:e61590 doi: 10.7554/eLife.61590
[2] From Louvain to Leiden: guaranteeing well-connected communities. Traag, V.A., Waltman. L., Van Eck, N.-J. (2018). Scientific reports, 9(1), 5233. 10.1038/s41598-019-41695-z
[3] Network Enhancement as a general method to denoise weighted biological networks. Wang B., Pourshafeie A., Zitnik M., Zhu J., Bustamante C.D., Batzoglou S., Leskovec J. (2018). Nature Communications, 9, 3108. 10.1038/s41467-018-05469-x