8/7/24 DL

Scripts to annotate TGIF-DC clusters as A and B comaprtments
with chromatin accessibility in H1-endoderm data 

1_get_mean_atac_per_cluster.py
	script to get mean ATACseq signal in each TGIF-DC 
	cluster

2_annotate_cluster.py
	script to assign each cluster to A or B compartment
	based on ATACseq signal

3_get_mean_atac_per_compartment.py
	script to get mean ATACseq signal in each compartment 

4A_make_heatmaps.py
4B_make_boxplots.py
	scripts to visualize ATACseq signal per cluster or
	compartments

tgif_output/
	output files from TGIF-DC

atacseq_chipseq_reads_coverage/
	atacseq signal files

bed/
	bed files of 100kb regions

mean_atac_per_cluster/
	ouput files from script 1

annotated/
	output files from script 2

mean_atac_per_compartment/
	output files from script 3

figures/
	output files from script 4A and B

