This repository contains a pipelne for binning, estimating the background distribution, and calculating the probability of being signal for ChIP-seq and related datatypes.

Overall inputs:

BAM filename
Genome assembly
Bin size (minimum 5 kB)

Overall outputs:

Bed file with binned reads that are adjusted for mappability and copy number variations
Parameters file with estimated values defining a gamma distribution describing the background of the bed file. This file ca

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