Good catch, it's the predictd program from MACS.
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Devon Ryan
Has anyone had experience with Q for ChIP-seq peak calling?
I have been trying to find tools to estimate fragment length for single end ChIP-seq data. I've been able to get some success with Homer's makeTagDirectory and MaSC but I wanted to triple check my numbers with another tool. Q is able to estimate the average fragment length as well as part of its peak calling. I was wondering if anyone has used it as it is relatively new and what they think of it? Can it be run on a mac system?
Or if you have any other recommendations of tools to estimate fragment length for single-end read data?
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You don't have the output from a bioanalyzer run? I would think that'd be more reliable.
see https://github.com/crazyhottommy/ChIP-seq-analysis/blob/master/part0_quality_control.md#encode-guidlines