feat: default min_frac_accessible to 0.10 - #66
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FIRE peaks now require >=10% of reads accessible on top of FDR peak calling by default; set min_frac_accessible: 0.0 for the old behavior. Co-Authored-By: Claude Fable 5 <noreply@anthropic.com>
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Split out of #62. FIRE peaks must now have at least 10% of reads accessible (
fire_coverage/coverage >= 0.10, applied inmerge_fire_peaks.py) in addition to passing FDR peak calling. Setmin_frac_accessible: 0.0to restore the old behavior.On the test dataset this removes no peaks (all peaks there exceed 19% accessibility), so test outputs are unchanged; on real WGS data marginal peaks will be filtered.