LL2homology(annotate)
LL2homology()所属R语言包：annotate
Functions that find the homology data for a given set of
找到一个给定的同源性数据的功能
译者：生物统计家园网 机器人LoveR
描述----------Description----------
Given a set of LocusLink ids or NCBI HomoloGeneIDs, the functions obtain the homology data and represent them as a list of sub-lists using the homology data package for the organism of interest. A sub-list can be of length 1 or greater depending on whether a LocusLink id can be mapped to one or more HomoloGeneIDs.
功能鉴于一套LocusLink IDS或NCBI HomoloGeneIDs的，获得的同源性数据，并代表他们利益的有机体的同源性数据包列表的子列表。可以是一个子列表长度为1或取决于，LocusLink ID是否可以被映射到一个或多个HomoloGeneIDs更大。
用法----------Usage----------
LL2homology(homoPkg, llids)
HGID2homology(hgid, homoPkg)
ACC2homology(accs, homoPkg)
参数----------Arguments----------
参数：llids
llids a vector of character strings or numberic numbers for a set of LocusLink ids whose homologous genes in other organisms are to be found
llids字符串或数字小一个LocusLink IDS的同源基因在其他生物的集数向量将被发现
参数：hgid
hgid a named vector of character strings or numberic numbers for a set of HomoloGeneIDs whose homologous genes in other organisms are to be found. Names of the vector give the code used by NCBI for organisms
hgid指定的字符串或数字小的数字为一组的同源性在其他生物的基因是被发现的HomoloGeneIDs向量。向量的名字给NCBI的生物体的代码
参数：accs
accs a vector of character strings for a set of GenBank Accession numbers
accs的字符串为一组的序列向量号
参数：homoPkg
homoPkg a character string for the name of the homology data package for a given organism, which is a short version of the scientific name of the organism plus homology (e. g. hsahomology)
homoPkg）短版的同源性数据包的名称字符串为一个给定的有机体，这是一个科学的有机体，加上同源的名称（如hsahomology
Details
详情----------Details----------
The homology data package has to be installed before executing any of the two functions.
同源的数据包必须安装之前执行任何两个函数。
Each sub-list has the following elements:
每个子列表有以下内容：
homoOrg - a named vector of a single character string whose value is the scientific name of the organism and name the numeric code used by NCBI for the organism.
homoOrg - 一个单一的字符串，其值是生物体的科学名称，并将其命名为数字代码，由NCBI的生物体用于命名的向量。
homoLL - an integer for LocusLink id.
homoLL - LocusLink ID的整数。
homoHGID - an integer for internal HomoloGeneID.
homoHGID - 一个内部HomoloGeneID的整数。
homoACC - a character string for GenBank accession number of the best matching sequence of the organism.
homoACC - 一个有机体的最佳匹配序列的GenBank登录号字符串。
homoType - a single letter for the type of similarity measurement between the homologous genes. homoType can be either B (reciprocal best best between three or more organisms), b (reciprocal best match between two organisms), or c (curated homology relationship between two organisms).
同型 - 同源基因之间的相似性度量类型的单个字母。同型可为B（三个或更多的生物体之间的相互最好的最好），B（倒数最好的两个生物体之间的比赛），或C（策划两个生物体之间的同源性关系）。
homoPS - a percentage value measured as the percent of identity of base pair alignment between the homologous sequences.
homoPS - ％之间的同源序列的基础上对对齐的身份衡量一个百分比值。
homoURL - a url to the source if the homology relationship is a curated orthology.
homoURL - 同源关系，如果是策划直向到源的URL。
Sub-lists with homoType = B or b will not have any value for homoURL and objects with homoType = c will not have any value for homoPS.
与同型= B或b的子列表，不会有任何与同型homoURL和对象的价值= C不会有任何homoPS价值。
值----------Value----------
Both functions returns a list of sub-lists containing data for homologous genes in other organisms.
这两个函数返回一个包含同源基因在其他生物数据的子列表列表。
作者（S）----------Author(s)----------
Jianhua Zhang
参考文献----------References----------
转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。
注：
注1：为了方便大家学习，本文档为生物统计家园网机器人LoveR翻译而成，仅供个人R语言学习参考使用，生物统计家园保留版权。
注2：由于是机器人自动翻译，难免有不准确之处，使用时仔细对照中、英文内容进行反复理解，可以帮助R语言的学习。
注3：如遇到不准确之处，请在本贴的后面进行回帖，我们会逐渐进行修订。
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发表于 2012-2-25 11:51:55
