Use hodge decomposition for trajectory analysis
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Nov 12, 2025 - Python
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trajectory-inference
Here are 7 public repositories matching this topic...
Cartography of Genomic Interactions Enables Deep Analysis of Single-Cell Expression Data (Nature Communications, 2023)
visualization bioinformatics deep-learning genomics tabular-data single-cell biomarker-discovery classification-algorithm biomarkers bioinfomatics-pipeline genomic-data-analysis genomics-visualization regression-algorithms data-classification bioinformatics-tool trajectory-inference cell-annotation multi-omic-integration
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May 27, 2024 - Python
Simulation based inference of differentiation trajectories from RNA velocity fields.
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Aug 22, 2023 - Python
A bioinformatics web app for single cell RNA seq analysis.
data-science bioinformatics deep-learning web-ui transcriptomics single-cell spatial-transcriptomics trajectory-inference scanpy streamlit squidpy
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Mar 24, 2024 - Python
A Graph Optimal Transport Python Package
clustering graphs multiplex-networks optimal-transport multilayer-networks multimodal trajectory-inference wasserstein-distance node-embeddings fused-gromov-wasserstein
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May 6, 2024 - Python
Tools for clustering and trajectory inference in large-scale genomic datasets (RNA-seq, ATAC-seq) using unsupervised deep learning. Implements a Variational Recurrent Neural Network (VRNN) for modeling single-cell time-series gene expression and chromatin accessibility.
machine-learning bioinformatics rna-seq clustering gene-expression bioinformatics-pipeline atac-seq unsupervised-learning single-cell nerual-network trajectory-inference macrophages unsupervised-genomics
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Sep 14, 2025 - Python
A docker container for scFates, mainly for cell trajectory inference analysis of single cell RNA-seq data
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Jan 22, 2025 - Python
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