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gene-regulatory-network-inference

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JBris / nextflow-graph-machine-learning

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A Nextflow pipeline demonstrating how to train graph neural networks for gene regulatory network reconstruction using DREAM5 data.

docker machine-learning deep-learning nextflow docker-compose minio variational-inference variational-autoencoder gene-regulatory-network graphsage graph-neural-networks mlops mlflow graph-neural-network nextflow-pipeline nextflow-pipelines gene-regulatory-networks gene-regulatory-network-inference dream5
  • Updated Apr 2, 2024
  • Python

SaniyaKhullar / NetREm

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Network Regression Embeddings reveal cell-type Transcription Factor coordination for target gene (TG) regulation

transcription-factors protein-interaction network-regularization gene-expression-profiles transcriptional-regulatory-network single-cell-analysis ppi-networks network-lasso multiomics-data gene-regulatory-network-inference bioinformatics-software transcription-factor-coordination regularization-embeddings regression-embeddings predictor-interactions network-guided-regression regression-with-prior-knowledge network-based-inference netrem
  • Updated May 18, 2024
  • Jupyter Notebook

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