easyLINKAGE-Plus——使用大规模单核苷酸多态性（SNP）数据进行自动连锁分析。
easyLINKAGE-Plus--automated linkage analyses using large-scale SNP data.
作者信息
Hoffmann K, Lindner T H
机构信息
Institute of Medical Genetics, Charité, Humboldt University Berlin, Augustenburger Platz 1, 13353 Berlin, Germany.
出版信息
Bioinformatics. 2005 Sep 1;21(17):3565-7. doi: 10.1093/bioinformatics/bti571. Epub 2005 Jul 12.
UNLABELLED
We extended the original easyLINKAGE program by enabling linkage analyses for large-scale SNP data in addition to those of microsatellites. We implemented new modules for Allegro, Merlin, SimWalk, GeneHunter Imprinting, GeneHunter TwoLocus, SuperLink and extended FastSLink by automatic loop breaking and new outputs. We added conditional linkage analyses as well as multipoint simulation studies, and extended error test routines by checking for Mendelian/non-Mendelian genotyping errors and for deviations from Hardy-Weinberg equilibrium. Data can be analyzed in sets of markers, in defined centimorgan intervals and by using different allele frequency algorithms. The outputs consist of genome-wide as well as chromosomal postscript plots of LOD scores, NPL scores, P-values and other parameters.
AVAILABILITY
http://www.uni-wuerzburg.de/nephrologie/molecular_genetics/molecular_genetics.htm
CONTACT
tom.lindner@mail.uni-wuerzburg.de
SUPPLEMENTARY INFORMATION
Supplementary information is available on the website. The current version is v4.01beta.
未标注
我们扩展了原始的easyLINKAGE程序，除了微卫星数据外，还能对大规模单核苷酸多态性（SNP）数据进行连锁分析。我们为Allegro、Merlin、SimWalk、GeneHunter印记分析、GeneHunter双位点分析、SuperLink实现了新模块，并通过自动断环和新输出扩展了FastSLink。我们增加了条件连锁分析以及多点模拟研究，并通过检查孟德尔/非孟德尔基因分型错误和哈迪-温伯格平衡偏差扩展了错误测试程序。数据可以按标记集、在定义的厘摩区间内以及使用不同的等位基因频率算法进行分析。输出包括全基因组以及染色体的LOD分数、NPL分数、P值和其他参数的PostScript图。
可用性
http://www.uni-wuerzburg.de/nephrologie/molecular_genetics/molecular_genetics.htm
联系方式
tom.lindner@mail.uni-wuerzburg.de
补充信息
网站上提供补充信息。当前版本是v4.01beta。
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