I am a newbie. I recently started using TF ChIP-seq, using the narrow peak data of the ENCODE project. I want to know if signal values from different ChIP-seq experiments are comparable? Or the signal value is influenced by the number of cells, sequencing depth or anything else?
What is a signal value, from which files do they come, please add some background, best would be a link that is representative.
narrow peak format http://genome.ucsc.edu/FAQ/FAQformat.html#format12 ENCODE TF ChIP-seq https://www.encodeproject.org/chip-seq/transcription_factor/