microenvironment 开源项目推荐（12 个）

sqjin /CellChat

R工具包，用于根据单细胞数据推断、可视化和分析细胞间通信

jinworks /CellChat

R工具包，用于从单细胞和空间分辨转录组学中推断、可视化和分析细胞间通讯

LirongWu /MAPE-PPI

Code for ICLR 2024 (Spotlight) paper "MAPE-PPI: Towards Effective and Efficient Protein-Protein Interaction Prediction via Microenvironment-Aware Protein Embedding"

digitalcytometry /ecotyper

EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.

AntonioDeFalco /SCEVAN

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.

IOBR /IOBRpy

A Python toolkit for bulk RNA-seq analysis of the tumor microenvironment and immunity, transforming raw sequencing data into comprehensive microenvironment insights.

csbg /neuroblastoma

Single-cell transcriptomics and epigenomics unravel the role of monocytes in neuroblastoma bone marrow metastasis

theimagelab /entrain

Entrain: Predicting Environmental Regulators of Differentiation Trajectories

raghavagps /TumorHoPe

A comprehensive database of Tumor Homing Peptides

Jingwe-Zhao /SpotOnco

A universal tool for rapid identification of cancer foci and tumor boundaries in spatial transcriptome

ARyaskov /kira-microenvironment

kira-microenvironment builds a deterministic directed interaction-potential graph over groups: source_group -> ligand -> receptor -> target_group. It resolves LR resources, aggregates expression by group, scores pairwise group interactions, summarizes network structure, and can optionally link with kira-secretion regimes

ceil-python /microenv

Minimal implementation of environment with different data types represented as a tree.