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aryeelab / diffloop-paper

Sample Analysis for diffloop paper
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Support for hic data #1

Closed QianzhaoJ closed 4 years ago

QianzhaoJ commented 4 years ago

Hi: I think It‘s helpful tools to find the differential loop structure ! But whether it can be used to the differential loop structure calling by hic data ? I can generate the input file like the first three columns specify the position (chr:start:stop) of the first anchor, the second three columns specify the position (chr:start:stop) of the secnd anchor, the 7th column is “.” and the 8th column is the number of paired-end reads . Thanks in advance ! Qianzhao

caleblareau commented 4 years ago

So in principle, the same model can be applied so you're certainly welcome (and encouraged) to try

However, some of the accessor functions may be better with a dedicated HiC package such as diffHiC (https://bioconductor.org/packages/release/bioc/html/diffHic.html)

QianzhaoJ commented 4 years ago

Thanks !

QianzhaoJ commented 4 years ago

Thanks !