├── .gitignore ├── LICENSE ├── README.md ├── TODO ├── bin └── idr ├── idr ├── IDR_parameter_estimation.c ├── __init__.py ├── idr.py ├── inv_cdf.c ├── inv_cdf.pyx ├── optimization.py ├── stuff_i_pbly_wont_use.py ├── symbolic.py ├── test_inv_cdf.py └── utility.py ├── setup.py └── tests └── data ├── ENCFF000XUK-chr21.regionPeak.gz ├── ENCFF000XUL-chr21-ENCFF000XUK-chr21_pooled.regionPeak.gz ├── ENCFF000XUL-chr21.regionPeak.gz ├── RAMPAGE_peaks_ENCBS047RNA_1.narrowPeak ├── RAMPAGE_peaks_ENCBS047RNA_2.narrowPeak ├── peak1 ├── peak1_sub ├── peak1_sub_fail ├── peak1_sub_pass ├── peak1_sub_pass_in ├── peak2 ├── peak2_sub ├── peak2_sub_fail ├── peak2_sub_pass ├── peak2_sub_pass_in ├── wgEncodeBroadHistoneHelas3CtcfStdAlnRep0.pr1.bam_VS_wgEncodeBroadHistoneHelas3ControlStdAlnRep0.bam.regionPeak ├── wgEncodeBroadHistoneHelas3CtcfStdAlnRep0.pr2.bam_VS_wgEncodeBroadHistoneHelas3ControlStdAlnRep0.bam.regionPeak ├── wgEncodeSydhTfbsGm08714Znf274UcdAlnRep0.pr1.bam_VS_wgEncodeSydhTfbsGm08714InputUcdAlnRep1.bam.regionPeak └── wgEncodeSydhTfbsGm08714Znf274UcdAlnRep0.pr2.bam_VS_wgEncodeSydhTfbsGm08714InputUcdAlnRep1.bam.regionPeak /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/kundajelab/idr/HEAD/.gitignore -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/kundajelab/idr/HEAD/LICENSE -------------------------------------------------------------------------------- /README.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/kundajelab/idr/HEAD/README.md -------------------------------------------------------------------------------- /TODO: 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