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. 2022 Jan 28;13:786501. doi: 10.3389/fgene.2022.786501

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Copyright © 2022 Aljogol, Thompson, Osborne and Mifsud.

This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner(s) are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms.

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Research summary. (A). CHi-C analytical tools used and their sources. (B). Strategy overview. HiCUP and mHiC were compared for their performance in mapping read pairs and filtering experimental artefacts. GOTHiC, CHiCMaxima, CHiCAGO and CHiCANE were compared for their ability to identify reproducible, biologically relevant interactions. Yellow boxes indicate the type of background model used by each tool. GOTHiC local filtering (LF) is an optional downstream filtering of GOTHiC globally significant interactions based on the local interaction profile of each bait.