论文标题
Fastremap：一种用于快速重新映射基因组组件读取的工具
FastRemap: A Tool for Quickly Remapping Reads between Genome Assemblies
论文作者
论文摘要
基因组读取数据集可以快速有效地从一个参考文献（例如，在两个参考版本或两个类似物种之间）使用多种工具，例如常用的交叉图工具。随着可用基因组数据集和参考的爆炸，高性能重新映射工具对于跟上基因组组装和分析的计算需求而言更为重要。 我们提供FastreMap，这是一种快速有效的工具，用于在基因组组件之间重新映射读取。 Fastremap提供高达7.82 $ \ times $ speedup（平均为6.47 $ \ times $），并且与最新的重新映射工具相比，峰值存储器消耗的61.7％（平均为80.7％）。 Fastremap用C ++编写。源代码和用户手册可免费获得：github.com/cmu-safari/fastremap。 Docker图像可在以下网址提供：https：//hub.docker.com/r/alkanlab/fast。也在Bioconda中提供：https：//anaconda.org/bioconda/fastremap-bio。
A genome read data set can be quickly and efficiently remapped from one reference to another similar reference (e.g., between two reference versions or two similar species) using a variety of tools, e.g., the commonly-used CrossMap tool. With the explosion of available genomic data sets and references, high-performance remapping tools will be even more important for keeping up with the computational demands of genome assembly and analysis. We provide FastRemap, a fast and efficient tool for remapping reads between genome assemblies. FastRemap provides up to a 7.82$\times$ speedup (6.47$\times$, on average) and uses as low as 61.7% (80.7%, on average) of the peak memory consumption compared to the state-of-the-art remapping tool, CrossMap. FastRemap is written in C++. The source code and user manual are freely available at: github.com/CMU-SAFARI/FastRemap. Docker image available at: https://hub.docker.com/r/alkanlab/fast. Also available in Bioconda at: https://anaconda.org/bioconda/fastremap-bio.
