Software for analysis and manipulation of genetic linkage data.
Software for analysis and manipulation of genetic linkage data.
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发表时间：
1992-06
影响因子：
9.8
通讯作者：
Raymond Weaver;Cynthia Helms;S. Mishra;H. Donis-Keller;Dr. Helen Donis-Keller
中科院分区：
文献类型：
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作者：
Raymond Weaver;Cynthia Helms;S. Mishra;H. Donis-Keller;Dr. Helen Donis-Keller
我们提出了八个用C语言编写的计算机程序，旨在分析基因型数据并支持用于构建遗传连锁图的现有软件。虽然每个程序都有其独特的目的，但它们都有一个共同的目标，即提供对遗传联系数据的更好理解，并使计算机成为更有效的地图构建工具。PIC/HET和FAMINFO程序自动计算相关数量，如杂合度，PIC，等位基因频率，以及标记和谱系的信息性。通过创建包含基因型分配的文件，PREINPUT简化了向人类多态研究中心（CEPH）数据库的数据提交，否则CEPH的INPUT程序需要手动输入。INHERIT是一个专门为绘制X染色体而编写的程序：通过在非假常染色体区域为男性分配一个虚拟等位基因，它消除了数据集中错误感知的非遗传。其余四个程序补充了先前发布的遗传连锁作图软件CRI-MAP和linkage。TWOTABLE为CRI-MAP两点计算的输出生成更可读的格式；UNMERGE与CRI-MAP的merge选项相反；和GENLINK和LINKGEN之间自动转换基因型数据文件格式所需的这些软件包。所有八个应用程序都从CRI-MAP和LINKAGE使用的相同类型的数据文件中读取输入。它们的使用简化了数据的管理，增加了对系谱信息内容的了解，并减少了构建染色体遗传连锁图所需的时间。
We present eight computer programs written in the C programming language that are designed to analyze genotypic data and to support existing software used to construct genetic linkage maps. Although each program has a unique purpose, they all share the common goals of affording a greater understanding of genetic linkage data and of automating tasks to make computers more effective tools for map building. The PIC/HET and FAMINFO programs automate calculation of relevant quantities such as heterozygosity, PIC, allele frequencies, and informativeness of markers and pedigrees. PREINPUT simplifies data submissions to the Centre d'Etude du Polymorphisme Humain (CEPH) data base by creating a file with genotype assignments that CEPH's INPUT program would otherwise require to be input manually. INHERIT is a program written specifically for mapping the X chromosome: by assigning a dummy allele to males, in the nonpseudoautosomal region, it eliminates falsely perceived noninheritances in the data set. The remaining four programs complement the previously published genetic linkage mapping software CRI-MAP and LINKAGE. TWOTABLE produces a more readable format for the output of CRI-MAP two-point calculations; UNMERGE is the converse to CRI-MAP's merge option; and GENLINK and LINKGEN automatically convert between the genotypic data file formats required by these packages. All eight applications read input from the same types of data files that are used by CRI-MAP and LINKAGE. Their use has simplified the management of data, has increased knowledge of the content of information in pedigrees, and has reduced the amount of time needed to construct genetic linkage maps of chromosomes.