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Signature Analysis and Visualization for Single-Cell RNA-seq
R
186
33
A Package for Cas9-Enabled Single Cell Lineage Tracing Tree Reconstruction
Python
101
32
In-Silico Modeling of Metabolic Heterogeneity using Single-Cell Transcriptomes
Python
128
33
Pipeline for predicting ChIP-seq peaks in novel cell types using chromatin accessibility
Python
10
5
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Showing 10 of 77 repositories
cPHS
Public
Code and data for “Can you trust your reconstructed lineage tree? A homoplasy-based approach for irreversible evolution” (Zilber et al.)
YosefLab/cPHS's past year of commit activity
Python
0
MIT
0
0
0
Updated Nov 12, 2026
scLAMBDA
Public
Agentic toolkit for biological data analysis
YosefLab/scLAMBDA's past year of commit activity
Python
0
MIT
0
0
0
Updated Nov 11, 2026
scvi-hub-models
Public
Reproducibility workflows for pre-trained scvi-tools models on Hugging Face
YosefLab/scvi-hub-models's past year of commit activity
Jupyter Notebook
3
MIT
1
1
0
Updated Nov 10, 2026
scvi-tools-mcp
Public
MCP (Model Context Protocol) server for deep probabilistic analysis of single-cell omics data using scvi-tools
YosefLab/scvi-tools-mcp's past year of commit activity
Python
2
BSD-3-Clause
0
0
0
Updated Nov 10, 2026
scib-metrics
Public
Accelerated, Python-only, single-cell integration benchmarking metrics
YosefLab/scib-metrics's past year of commit activity
Python
98
BSD-3-Clause
23
2
4
Updated Nov 10, 2026
YosefLab/scviva-tools-website's past year of commit activity
JavaScript
1
BSD-3-Clause
0
0
0
Updated Nov 10, 2026
scviva-tools
Public
scVIVA-Tools: A unified toolkit for spatial transcriptomics analysis
YosefLab/scviva-tools's past year of commit activity
Python
16
BSD-3-Clause
3
0
5
Updated Nov 10, 2026
YosefLab/treedata's past year of commit activity
Python
9
BSD-3-Clause
5
0
2
Updated Nov 9, 2026
destvi_utils
Public
Utilities for downstream analysis of destVI
YosefLab/destvi_utils's past year of commit activity
Python
1
BSD-3-Clause
0
1
1
Updated Nov 9, 2026
YosefLab/popV's past year of commit activity
Python
104
MIT
20
7
2
Updated Nov 9, 2026
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