HiCAT: a tool for automatic annotation of centromere structure.
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ABSTRACT:
SUBMITTER: Gao S
PROVIDER: S-EPMC10053651 | biostudies-literature | 2023 Mar
REPOSITORIES: biostudies-literature
Publications
HiCAT: a tool for automatic annotation of centromere structure.
Gao Shenghan S Yang Xiaofei X Guo Hongtao H Zhao Xixi X Wang Bo B Ye Kai K
Genome biology 20230328 1
Significant improvements in long-read sequencing technologies have unlocked complex genomic areas, such as centromeres, in the genome and introduced the centromere annotation problem. Currently, centromeres are annotated in a semi-manual way. Here, we propose HiCAT, a generalizable automatic centromere annotation tool, based on hierarchical tandem repeat mining to facilitate decoding of centromere architecture. We apply HiCAT to simulated datasets, human CHM13-T2T and gapless Arabidopsis thalian ...[more]
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