DeCGR: an interactive toolkit for deciphering complex genomic rearrangements from Hi-C data.

ABSTRACT:

Background

Complex genomic rearrangements (CGRs) drive the restructuring of chromatin architecture, resulting in significant interactions among rearranged fragments, visible as anomalous interaction blocks in chromatin contact maps generated by chromosome conformation capture technologies such as Hi-C. These blocks not only offer the orientation and genome coordinates of rearranged fragments but also filter out false positive CGRs, thereby facilitating CGR assembly. Despite this, there is a lack of interactive graphical software tailored for this purpose.

Results

We present DeCGR, a user-friendly Python toolbox specifically designed for deciphering CGRs in Hi-C data. DeCGR consists of four independent execution components. The Breakpoint Filtering module identifies and filte

SUBMITTER: Li J 

PROVIDER: S-EPMC11606078 | biostudies-literature | 2024 Nov

REPOSITORIES: biostudies-literature