the difference between *.interaction.txt.gz and *.filt.intra.loop_counts.bedpe

[WenChangYu]

Hi,

Hichipper documentation said *.interaction.txt.gz and *.filt.intra.loop_counts.bedpe are identical except in presentation, so I think their number of rows are the same. But in my hichipper output files, the rows number are different, *.interaction.txt.gz has more rows than *.filt.intra.loop_counts.bedpe dose.

Is there something wrong in using the hichipper?

Thanks in advance