高通量 MutMap 和 QTL-seq 分析流水线
High-performance pipeline for MutMap and QTL-seq.
机构信息
Department of Genomics and Breeding, Iwate Biotechnology Research Center, Kitakami, Japan.
Graduate School of Agriculture, Kyoto University, Kyoto, Japan.
出版信息
PeerJ. 2022 Mar 18;10:e13170. doi: 10.7717/peerj.13170. eCollection 2022.
SUMMARY
Bulked segregant analysis implemented in MutMap and QTL-seq is a powerful and efficient method to identify loci contributing to important phenotypic traits. However, the previous pipelines were not user-friendly to install and run. Here, we describe new pipelines for MutMap and QTL-seq. These updated pipelines are approximately 5-8 times faster than the previous pipeline, are easier for novice users to use, and can be easily installed through bioconda with all dependencies.
AVAILABILITY
The new pipelines of MutMap and QTL-seq are written in Python and can be installed via bioconda. The source code and manuals are available online (MutMap: https://github.com/YuSugihara/MutMap, QTL-seq: https://github.com/YuSugihara/QTL-seq).
摘要
在 MutMap 和 QTL-seq 中实施的 bulked segregant 分析是一种强大而有效的方法，可以识别对重要表型性状有贡献的基因座。然而，以前的管道在安装和运行方面不够用户友好。在这里，我们描述了 MutMap 和 QTL-seq 的新管道。这些更新的管道比以前的管道快约 5-8 倍，对于新手用户来说更容易使用，并且可以通过 bioconda 轻松安装，同时满足所有依赖项。
可用性
MutMap 和 QTL-seq 的新管道是用 Python 编写的，可以通过 bioconda 安装。源代码和手册可在线获得（MutMap：https://github.com/YuSugihara/MutMap，QTL-seq：https://github.com/YuSugihara/QTL-seq）。
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