ndtippens / scGROseq Public

forked from jaymahat/scGROseq

scGRO-seq analyses codes

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Name		Name	Last commit message	Last commit date
Latest commit History 3 Commits
1a_scGROseq_merge_BAM.ipynb		1a_scGROseq_merge_BAM.ipynb
1b_scGROseq_filter_reads.ipynb		1b_scGROseq_filter_reads.ipynb
1c_scGROseq_countFeatures_filterCells.ipynb		1c_scGROseq_countFeatures_filterCells.ipynb
1d_scGROseq_make_bedgraphs.ipynb		1d_scGROseq_make_bedgraphs.ipynb
1e_optimize_groHMM.ipynb		1e_optimize_groHMM.ipynb
1f_refine_genes_by_density_and_groHMM.ipynb		1f_refine_genes_by_density_and_groHMM.ipynb
1g_refine_enhancers_by_truncated_groHMM.ipynb		1g_refine_enhancers_by_truncated_groHMM.ipynb
2a_simulate_counts.ipynb		2a_simulate_counts.ipynb
2b_simulate_bursting.ipynb		2b_simulate_bursting.ipynb
2c_bursting_enrichment.ipynb		2c_bursting_enrichment.ipynb
2d_Compute_burst_kinetics.ipynb		2d_Compute_burst_kinetics.ipynb
3_5c_CellCycle_&_CRISPRverifiedEnhancers.ipynb		3_5c_CellCycle_&_CRISPRverifiedEnhancers.ipynb
4a_GxG_ALL_permuted.ipynb		4a_GxG_ALL_permuted.ipynb
4b_GxG_ALL_Corr.ipynb		4b_GxG_ALL_Corr.ipynb
4c_GxG_ALL_Corr_chiSq.ipynb		4c_GxG_ALL_Corr_chiSq.ipynb
5a_ExG_ALL_Corr_permuted.ipynb		5a_ExG_ALL_Corr_permuted.ipynb
5b_ExG_ALL_Corr.ipynb		5b_ExG_ALL_Corr.ipynb
5c_ExG_ALL_Corr_chiSq.ipynb		5c_ExG_ALL_Corr_chiSq.ipynb
6a_plot_Polymerase_view.ipynb		6a_plot_Polymerase_view.ipynb
6b_plot_Gene-Gene_pairs.ipynb		6b_plot_Gene-Gene_pairs.ipynb
6c_plot_Gene-Enh_pairs.ipynb		6c_plot_Gene-Enh_pairs.ipynb
LICENSE		LICENSE
README.md		README.md
scGRO_functions.r		scGRO_functions.r