SIApopr：一种用于模拟进化分支树的计算方法，用于分析肿瘤克隆进化。
SIApopr: a computational method to simulate evolutionary branching trees for analysis of tumor clonal evolution.
机构信息
Department of Biostatistics and Computational Biology, Center for Cancer Evolution, Dana-Farber Cancer Institute, and Department of Biostatistics, Harvard School of Public Health, Boston, MA, USA.
出版信息
Bioinformatics. 2017 Jul 15;33(14):2221-2223. doi: 10.1093/bioinformatics/btx146.
SUMMARY
SIApopr (Simulating Infinite-Allele populations) is an R package to simulate time-homogeneous and inhomogeneous stochastic branching processes under a very flexible set of assumptions using the speed of C ++. The software simulates clonal evolution with the emergence of driver and passenger mutations under the infinite-allele assumption. The software is an application of the Gillespie Stochastic Simulation Algorithm expanded to a large number of cell types and scenarios, with the intention of allowing users to easily modify existing models or create their own.
AVAILABILITY AND IMPLEMENTATION
SIApopr is available as an R library on Github ( https://github.com/olliemcdonald/siapopr ).
SUPPLEMENTARY INFORMATION
Supplementary data are available at Bioinformatics online.
CONTACT
摘要
SIApopr（模拟无限等位基因群体）是一个 R 包，使用 C++的速度在非常灵活的假设下模拟时齐和非时齐随机分支过程。该软件在无限等位基因假设下模拟克隆进化，同时出现驱动突变和乘客突变。该软件是 Gillespie 随机模拟算法的应用，扩展到大量细胞类型和场景，目的是使用户能够轻松修改现有模型或创建自己的模型。
可用性和实现
SIApopr 作为一个 R 库在 Github 上可用（https://github.com/olliemcdonald/siapopr）。
补充信息
补充数据可在生物信息学在线获得。
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