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config.ini
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config.ini
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[filter_settings]
filter_type = either
minimum_reads = 50
[sgrna_analysis]
pseudocount_behavior = zeros only
pseudocount = 0.1
condition_string = gamma:T0:treated
[gene_analysis]
collapse_to_transcripts = True
generate_pseudogene_dist = auto
pseudogene_size = 10
num_pseudogenes = 16000
calculate_ave = True
best_n = 3
calculate_mw = True
calculate_nth = False
nth = 2
[experiment_settings]
output_folder = /Users/rashid/Desktop/OLD/Scripts/screen-processing/scripts/new_2_files
experiment_name = UfOPJA
[library_settings]
library = CRISPRi_v2_human
[counts_files]
counts_file_string = /Users/rashid/Desktop/OLD/Scripts/screen-processing/scripts/new_2_files/t0_rep1.counts:T0|replicate_1
/Users/rashid/Desktop/OLD/Scripts/screen-processing/scripts/new_2_files/endpoint_rep1.counts:treated|replicate_1
/Users/rashid/Desktop/OLD/Scripts/screen-processing/scripts/new_2_files/endpoint_rep2.counts:treated|replicate_2
/Users/rashid/Desktop/OLD/Scripts/screen-processing/scripts/new_2_files/t0_rep2.counts:T0|replicate_2
[growth_values]