Department of Biology and Evolution of Marine Organisms, Stazione Zoologica Anton Dohrn, Villa Comunale, Naples, Italy.
Department of Research Infrastructures for Marine Biological Resources, Stazione Zoologica Anton Dohrn, Villa Comunale, Naples, Italy.
Bioinformatics. 2018 Nov 15;34(22):3921-3923. doi: 10.1093/bioinformatics/bty486.
Studies on gene clusters proved to be an excellent source of information to understand genomes evolution and identifying specific metabolic pathways or gene families. Improvements in sequencing methods have resulted in a large increase of sequenced genomes for which cluster annotation could be performed and standardized. Currently available programs are developed to search for specific cluster types and none of them is suitable for a broad range of user-based choices. We have developed ClusterScan which allows identifying clusters of any kind of feature simply based on their genomic coordinates and user-defined categorical annotations.
The tool is written in Python, distributed under the GNU General Public License (GPL) and available on Github at http://bit.ly/ClusterScan or as Docker image at sangeslab/clusterscan: latest. It is supported through a mailing-list on http://bit.ly/ClusterScanSupport.
Supplementary data are available at Bioinformatics online.
基因簇的研究被证明是了解基因组进化和识别特定代谢途径或基因家族的极好信息来源。测序方法的改进导致了大量测序基因组的产生，这些基因组可以进行聚类注释和标准化。目前可用的程序是为搜索特定的聚类类型而开发的，没有一个程序适合广泛的基于用户的选择。我们开发了 ClusterScan，它允许根据基因座坐标和用户定义的分类注释，简单地识别任何类型特征的聚类。
该工具是用 Python 编写的，根据 GNU 通用公共许可证 (GPL) 分发，并可在 Github 上获得，网址为 http://bit.ly/ClusterScan，也可以作为 Docker 镜像获得，网址为 sangeslab/clusterscan：latest。它通过在 http://bit.ly/ClusterScanSupport 上的邮件列表得到支持。
补充数据可在 Bioinformatics 在线获得。
