spectrum-of-differentiation-supplements

Mirror of analysis files for "Single-Cell RNA-Sequencing Reveals a Continuous Spectrum of Differentiation in Hematopoietic Cells"

This repo contains the IPython notebooks used for the analysis in the paper.

The file zv9_gene_annotation.txt contains information about Zebrafish genes from Ensembl BioMart.

Name		Name	Last commit message	Last commit date
Latest commit History 2 Commits
1. Find state change clusters.ipynb		1. Find state change clusters.ipynb
2. Find cluster marker genes.ipynb		2. Find cluster marker genes.ipynb
3. Progression ordering and plots.ipynb		3. Progression ordering and plots.ipynb
4. Gaussian process pseudotime analysis.ipynb		4. Gaussian process pseudotime analysis.ipynb
5. Ohnolog taxonomy.ipynb		5. Ohnolog taxonomy.ipynb
6. Followup results.ipynb		6. Followup results.ipynb
7. Alternative pseudotime calculation.ipynb		7. Alternative pseudotime calculation.ipynb
README.md		README.md
gene_expression_s.csv		gene_expression_s.csv
sample_info_qc.csv		sample_info_qc.csv
zv9_gene_annotation.txt		zv9_gene_annotation.txt

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