Department of Botany and Program in Ecology, University of Wyoming, Laramie, WY 82071, USA.
Mol Ecol Resour. 2010 Mar;10(2):378-84. doi: 10.1111/j.1755-0998.2009.02733.x. Epub 2009 Jun 10.
A new software package (introgress) provides functions for analysing introgression of genotypes between divergent, hybridizing lineages, including estimating genomic clines from multi-locus genotype data and testing for deviations from neutral expectations. The software works with co-dominant, dominant and haploid marker data, and does not require fixed allelic differences between parental populations for the sampled genetic markers. Permutation and parametric procedures generate neutral expectations for introgression and provide a basis for significance tests of observed genomic clines. The software also implements maximum likelihood estimates of hybrid index from genotypic data and a number of graphical analyses. The package is an extension of the R statistical software, is written in the R language and is freely available through the Comprehensive R Archive Network (CRAN; http://cran.r-project.org/). In this study, we describe introgress and demonstrate its use with a sample data set.
一个新的软件包（introgress）提供了分析基因型在分歧、杂交谱系之间的渐渗的功能，包括从多基因座基因型数据估计基因组渐渗和检验偏离中性预期。该软件可与共显性、显性和单倍体标记数据一起使用，并且对于采样遗传标记，不需要父群体之间的固定等位基因差异。置换和参数程序为渐渗产生中性预期，并为观察到的基因组渐渗的显著检验提供基础。该软件还实现了从基因型数据估计杂种指数的最大似然估计和许多图形分析。该软件包是 R 统计软件的扩展，用 R 语言编写，并通过综合 R 档案网络（CRAN；http://cran.r-project.org/）免费提供。在本研究中，我们描述了 introgress 并使用示例数据集演示了它的用法。
