R toolkit for inference, visualization and analysis of cell-cell communication from single-cell data
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Jan 6, 2024 - R
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microenvironment
Here are 8 public repositories matching this topic...
R toolkit for inference, visualization and analysis of cell-cell communication from single-cell and spatially resolved transcriptomics
single-cell-analysis spatial-transcriptomics cell-cell-interaction cell-cell-communication microenvironment
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Dec 11, 2024 - R
Code for ICLR 2024 (Spotlight) paper "MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding"
vocabulary protein-protein-interaction codebook ppi-networks protein-embedding protein-representation-learning microenvironment masked-modeling
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Jun 20, 2024 - Python
EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
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Mar 28, 2024 - R
R package that automatically classifies the cells in the scRNA data by segregating non-malignant cells of tumor microenviroment from the malignant cells. It also infers the copy number profile of malignant cells, identifies subclonal structures and analyses the specific and shared alterations of each subpopulation.
scrna-seq single-cell copy-number-variation copynumber tumor-evolution tumor-heterogeneity aneuploidy scrna-seq-analysis subclone-identification tumor-classification clonal-evolution scrna-pipeline subclonal-deconvolution microenvironment clonal-analysis
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Jun 11, 2024 - HTML
Single-cell transcriptomics and epigenomics unravel the role of monocytes in neuroblastoma bone marrow metastasis
scrna-seq single-cell heterogeneity metastasis scatac-seq bone-marrow neuroblastoma monocytes microenvironment
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Dec 11, 2023 - Jupyter Notebook
Entrain: Predicting Environmental Regulators of Differentiation Trajectories
single-cell trajectory-analysis differentiation rna-velocity cell-fate cell-cell-communication microenvironment
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Nov 13, 2023 - R
A universal tool for rapid identification of cancer foci and tumor boundaries in spatial transcriptome
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Nov 28, 2024 - R
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