criteria.default.json

{
	"01_No. of mapped nodup non-mito reads" : {
		"eval" : "qc['flagstat_qc']['rep?']['total']",
		"condition_se" : { "OK" : ">= 25000000", "FAIL" : "< 25000000" },
		"condition_pe" : { "OK" : ">= 50000000", "FAIL" : "< 50000000" }
	},
	"02_Alignment rate" : {
		"eval" : "qc['nodup_flagstat_qc']['rep?']['total']/qc['flagstat_qc']['rep?']['total']",
		"condition" : { "OK" : ">= 0.95", "ACCEPTABLE" : ">= 0.80", "FAIL" : "< 0.80" }
	},
	"03_No. of IDR peaks" : {
		"eval" : "qc['idr_reproducibility_qc']['N_opt']",
		"condition" : { "OK" : ">= 70000", "FAIL" : "< 70000" }
	},
	"04_No. of naive overlap peaks" : {
		"eval" : "qc['overlap_reproducibility_qc']['N_opt']",
		"condition" : { "OK" : ">= 150000", "FAIL" : "< 150000" }
	},
	"05_IDR FRiP per replicate" : {
		"eval" : "qc['idr_frip_qc']['rep?-pr']['FRiP']",
		"condition" : { "OK" : ">= 0.1", "FAIL" : "< 0.1" }
	},
	"05_Overlap FRiP per replicate" : {
		"eval" : "qc['overlap_frip_qc']['rep?-pr']['FRiP']"
	},
	"06_IDR FRiP of pooled sample" : {
		"eval" : "qc['idr_frip_qc']['ppr']['FRiP']",
		"condition" : { "OK" : ">= 0.1", "FAIL" : "< 0.1" }
	},
	"06_Overlap FRiP of pooled sample" : {
		"eval" : "qc['overlap_frip_qc']['ppr']['FRiP']",
		"condition" : { "OK" : ">= 0.1", "FAIL" : "< 0.1" }
	},
	"07_IDR reproducibility" : {
		"eval" : "qc['idr_reproducibility_qc']['reproducibility']"
	},
	"08_TSS enrichment" : {
		"eval" : "qc['ataqc']['rep?']['TSS_enrichment']",
		"condition" : { "OK" : ">= 10.0", "FAIL" : "< 10.0" }
	},
	"09_NFR region" : {
		"eval" : "qc['ataqc']['rep?']['Presence of NFR peak']"
	},
	"10_mono-nuc region" : {
		"eval" : "qc['ataqc']['rep?']['Presence of Mono-Nuc peak']"
	},
	"11_NRF" : {
		"eval" : "qc['pbc_qc']['rep?']['NRF']"
	},
	"12_PBC1" : {
		"eval" : "qc['pbc_qc']['rep?']['PBC1']"
	},
	"13_PBC2" : {
		"eval" : "qc['pbc_qc']['rep?']['PBC2']"
	}
}