Hi,
I am new to Chip-seq, my experiment's sequencing has finished, and the read
alignment is currently running
The experiment  was done for histone acetylation, and I have two types of
controls: input DNA and unmodified histone.
I have two conditions and 6 biological replicates of each condition
I wanted some advice on how to perform basic quality control on Chip-seq
data using Bioconductor
and also some ideas of which kinds of biases people usually observe and I
should keep my eyes open for
any advice will be greatly appreciated!
thanks

Lucia

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