multiple SRA runs analysis

Question

[liqingyan]

I am a new newbie to the ChIP-Seq analysis and SRA. I download the ChIP-Seq raw data from (SRX012368), and there are 4 run files.

My question is if i want to do peak calling, should i download all 4 run files and merge/cat them , or choose only one run file.

Answer 1

[Devon Ryan]

The four runs are from a single sample/library, so merge prior to peak calling.