config.yml

# bed file of peak coordinates - first 200
# The name column should have only one underscore (_) before the peak number
# For example: peak_1, myprettybedfilespeak_1
data_file: /projects/ec31/mathelier-group/katalitf/AITAC_test/AI-TAC_anthony/sample_data/ImmGenATAC/ImmGenATAC18_AllOCR.200.bed
# region_size = (end - start) in bed file, the bed file should have entries of the same size
region_size: 250
# tsv file of peak intensity values - first 200
# the peak names must match the names in the bed files
intensity_file: /projects/ec31/mathelier-group/katalitf/AITAC_test/AI-TAC_anthony/sample_data/ImmGenATAC/ImmGenATAC18_AllOCR_Intensity.200.tsv
# path to reference genome
reference_genome_dir: /projects/ec31/mathelier-group/katalitf/AITAC_test/AI-TAC_anthony/sample_data/ImmGenATAC/mm10/
# number of chromsomes in the reference genome not including X and Y
num_chr: 19
# name for output folder
# output_directory: /projects/ec31/mathelier-group/katalitf/AITAC_test/AI-TAC_anthony/mouse_immune_data/
output_directory: /home/katalitf/Documents/AITAC_updated/AI-TAC/train_test_test
# log file
log: /home/katalitf/Documents/AITAC_updated/AI-TAC/train_test_test/log.txt