R语言 procoil包 predict-methods()函数中文帮助文档(中英文对照)

loveR

predict-methods(procoil)
predict-methods()所属R语言包：procoil

                                        Predict oligomerization of coiled coil segment
                                         卷曲段的预测齐聚

                                         译者：生物统计家园网 机器人LoveR

描述----------Description----------

Function for predicting the oligomerization of a coiled coil segment
功能预测的卷曲段齐聚


用法----------Usage----------


## S4 method for signature 'CCModel'
predict(object, seq, reg)



参数----------Arguments----------

参数：object
The model to be considered; can either be one of the  models included in the package (PrOCoilModel and PrOCoilModelBA) or any other model loaded or created by the user. For a detailed explanation of the two default models, seeCCModel.
要考虑的模型可以是包中包含的车型之一（PrOCoilModel和PrOCoilModelBA）或任何其他模型加载或由用户创建的。如需详细解释了两个默认的模型，看到CCModel。


参数：seq
An amino acid sequence; valid characters are all uppercase letters except "B", "J", "O", "U", "X", and "Z"; invalid characters are tolerated, but ignored by prediction. This argument can be of any type that can be cast to a character string, including Biostrings objects.
氨基酸序列;有效的字符是大写字母“B”，“J”，“O”，“U”，“X”，“Z”以外的所有无效字符的耐受性，却忽略由预测。这个参数可以是任何类型可以转换为一个字符串，其中包括Biostrings对象。


参数：reg
A character string denoting the heptad register; valid characters are the lowercase letters "a" to "g". All characters must be in proper order, e.g. "a" can only be followed by "b", "b" can only be followed by "c", ..., "g" can only be followed by "a". The register can start with any of the seven letters. It must always have the same length as the seq argument. If this argument is missing, predict looks whether the object passed as argument seq has an attribute reg. If this attribute is missing and if seq is of class BString or AAString, predict looks whether there is a reg component in the metadata slot of seq.
一个字符串，表示七肽寄存器;有效字符是小写字母a到G。所有字符必须是在正确的顺序，例如： “只能遵循B，只能由C，B，G只能遵循一。寄存器可以启动任何的七封信。它必须始终作为seq参数的长度相同。如果缺少此参数，predict看起来是否通过对象作为参数seq属性reg。如果缺少此属性，如果seq类BString或AAString，predict看起来是否有一个reg组件在metadata中的 seq插槽。


Details

详情----------Details----------

The function predict is the most important one in the procoil package. It is used to apply a coiled coil prediction model to a new coiled coil sequence. It uses the discriminant function described in CCModel. By default the final classification is computed on the basis of the discriminant function value. If f(x)>=0, x is predicted as trimer, otherwise as dimer.
的功能predict是procoil包中最重要的一个。它被用来申请卷曲到一个新的卷曲序列预测模型。它采用的判别函数CCModel。默认情况下，最终的分类判别函数值的基础上计算。如果f(x)>=0，x预计为三聚体，否则为二聚体。


值----------Value----------

If the heptad register (supplied by argument reg or by one of the way described above) does not contain any dashes "-", predict returns a CCProfile object containing the classification result and the prediction profile. If the heptad register contains dashes "-", predict returns a list of CCProfile objects, each corresponding to the prediction profile of one of the coiled coil segments contained in the sequence. The names of the components are of the format “s_e”, where "s" denotes the start position and "e" denotes the end position of the respective coiled coil sequence in the original sequence. show returns an invisible NULL
七肽寄存器（参数reg或通过上述方式之一提供）如果不包含任何破折号 - ，predict返回一个CCProfile对象，其中包含的分类结果预测个人资料。如果七肽寄存器包含破折号 - ，predictCCProfile对象返回的列表，每个对应一个序列中的卷曲段的预测轮廓。组件的名称格式为“s_e”，其中S表示的起始位置和E表示原始序列的终端位置各自卷曲顺序的。 show返回一个无形的NULL


作者（S）----------Author(s)----------


Ulrich Bodenhofer <a href="mailto:bodenhofer@bioinf.jku.at">bodenhofer@bioinf.jku.at</a>



参考文献----------References----------


Hochreiter, S. (2011) Complex networks govern coiled coil oligomerization - predicting and profiling by means of a machine learning approach. Mol. Cell. Proteomics.

参见----------See Also----------

procoil, CCModel,
procoil，CCModel


举例----------Examples----------


## predict oligomerization of GCN4 wildtype[＃预测因子GCN4野生齐聚]
GCN4wt<-predict(PrOCoilModel,
                "MKQLEDKVEELLSKNYHLENEVARLKKLV",
                "abcdefgabcdefgabcdefgabcdefga")

## show and plot results[＃显示和图的结果]
GCN4wt
plot(GCN4wt)

## predict oligomerization of unknown sequence (Marcoil example)[＃齐聚预测未知序列（Marcoil例如）]
MarcoilEx<-predict(PrOCoilModel,
                 "MGECDQLLVFMITSRVLVLSTLIIMDSRQVYLENLRQFAENLRQNIENVHSFLENLRADLENLRQKFPGKWYSAMPGRHG",
                 "-------------------------------abcdefgabcdefgabcdefgabcdefgabcdefg--------------")

## show and plot results[＃显示和图的结果]
MarcoilEx
plot(MarcoilEx[[1]])

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。