GitHub - zrudnick/spatial-temporal-gene-expression-simulation

Simulatation of spatial and temporal gene expression data
Uses SERGIO (Single-cell Expression of Genes in Silico) by Sinha Lab

Jose Lugo-Martinez's Lab, School of Computer Science, Carnegie Mellon University
Developed by Zoe Rudnick and Sarah Baalbaki

Name		Name	Last commit message	Last commit date
Latest commit History 90 Commits
.vscode		.vscode
SERGIO		SERGIO
__pycache__		__pycache__
bMat		bMat
interaction_pairs		interaction_pairs
midbrain_pseudotime.h5ad		midbrain_pseudotime.h5ad
README.md		README.md
__init__.py		__init__.py
format_input_files.py		format_input_files.py
gene.py		gene.py
gene_expr.csv		gene_expr.csv
gene_expression.h5ad		gene_expression.h5ad
h5ad.py		h5ad.py
input_file_regs		input_file_regs
input_file_targets		input_file_targets
main.py		main.py
receptor_ligand_v4.csv		receptor_ligand_v4.csv
sc_simu.h5ad		sc_simu.h5ad
sergio.py		sergio.py
sergio_steady_state.py		sergio_steady_state.py
spatial.py		spatial.py
st_simu.h5ad		st_simu.h5ad

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