Question: What information does ChIA-PET2 tool trim statistics terms provide exactly?

gravatar for bioinfo89

2 hours ago by

Hi All,

I am analysing ChIA-PET data using ChIA-PET2 tool. I wanted to know
what exactly the following terms mean from the trim statistics the
tool provides:

Expect PETs
Expect both PETs
1Empty PETs
2Empty PETs
Valid PETs

What is the difference between Expected and Expected both PETs? And
similarly what exactly does 1 Empty and 2 Empty mean? Is it related to
absence of the linker sequences in the reads? Also, how does the tool
detect which PETs are valid?
None of the information is provided in the tool paper.
Any help would be appreciated. Thanks!

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