Hi,

I ran this pipeline without specifying FDR cut-off which should mean that it'll use the default FDR of 0.01 but it didn't.
This was run with chip.pipline_type: "tf"
Am I missing something? Am I looking at the wrong column or wrong file? Thank you in advance for your help in clarifying this.

pwd
/home/user/encode_chip_vn2/peak/rep1
zcat VN2_FLAG_1_S13_L002_R1_001.srt.nodup_x_ctl.pooled.300K.regionPeak.gz | awk 'NR == 1 {min = $9} $9 < min {min = $9} END {print min}'
0.490867206197159