Mosdepth：基因组和外显子组的快速覆盖度计算。
Mosdepth: quick coverage calculation for genomes and exomes.
机构信息
Department of Human Genetics.
Department of Biomedical Informatics.
出版信息
Bioinformatics. 2018 Mar 1;34(5):867-868. doi: 10.1093/bioinformatics/btx699.
SUMMARY
Mosdepth is a new command-line tool for rapidly calculating genome-wide sequencing coverage. It measures depth from BAM or CRAM files at either each nucleotide position in a genome or for sets of genomic regions. Genomic regions may be specified as either a BED file to evaluate coverage across capture regions, or as a fixed-size window as required for copy-number calling. Mosdepth uses a simple algorithm that is computationally efficient and enables it to quickly produce coverage summaries. We demonstrate that mosdepth is faster than existing tools and provides flexibility in the types of coverage profiles produced.
AVAILABILITY AND IMPLEMENTATION
mosdepth is available from https://github.com/brentp/mosdepth under the MIT license.
CONTACT
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
摘要
Mosdepth 是一种新的命令行工具，用于快速计算全基因组测序覆盖度。它可以从 BAM 或 CRAM 文件中计算基因组中每个核苷酸位置或基因组区域集的深度。基因组区域可以指定为 BED 文件，以评估捕获区域的覆盖度，也可以指定为固定大小的窗口，以进行拷贝数调用。Mosdepth 使用一种计算效率高的简单算法，可以快速生成覆盖度摘要。我们证明 mosdepth 比现有工具更快，并提供了生成覆盖度谱的灵活性。
可用性和实现
mosdepth 可从 https://github.com/brentp/mosdepth 根据麻省理工学院的许可证获得。
联系方式
补充信息
补充数据可在 Bioinformatics 在线获得。
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