R语言 MSnbase包 pSet-class()函数中文帮助文档(中英文对照)

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pSet-class(MSnbase)
pSet-class()所属R语言包：MSnbase

                                         Class to Contain Raw Mass-Spectrometry Assays and Experimental Metadata
                                         类包含原始质谱仪检测和试验的元数据

                                         译者：生物统计家园网 机器人LoveR

描述----------Description----------

Container for high-throughput mass-spectrometry assays and experimental metadata. This class is based on Biobase's "eSet" virtual class, with the notable exception that 'assayData' slot is an environment contain objects of class "Spectrum".
高通量质谱仪检测和试验的元数据的容器。这个类是基于BIOBASE的"eSet"虚拟类具有显着的例外，“assayData的插槽是一个环境包含类"Spectrum"的对象。


类的对象----------Objects from the Class----------

A virtual Class: No objects may be created from it.   See "MSnExp" for instantiatable sub-classes.
可以从它创建一个虚拟类：无对象。看到"MSnExp"的instantiatable为子类。


插槽----------Slots----------




assayData: Object of class "environment" containing the MS spectra (see "Spectrum1" and "Spectrum2").
assayData：Object类的"environment"包含质谱（见"Spectrum1"和"Spectrum2"）。




phenoData: Object of class "AnnotatedDataFrame" containing  experimenter-supplied variables describing sample (i.e the individual tags for an labelled MS experiment) See phenoData for more details.
phenoData：Object类的"AnnotatedDataFrame"含实验者提供的变量，描述样本（即单个标签标记MS实验）见phenoData更多细节。




featureData: Object of class "AnnotatedDataFrame" containing variables describing features (spectra in our case), e.g. identificaiton data, peptide sequence, identification score,... (inherited from "eSet"). See featureData for more details.
featureData：类"AnnotatedDataFrame"包含变量描述功能对象（在本例中的光谱），例如： identificaiton数据，肽序列，鉴定得分，... （从"eSet"继承）。看到featureData更多细节。




experimentData: Object of class "MIAPE", containing details of experimental methods. See experimentData for more details.
experimentData类"MIAPE"，包含实验方法的细节的对象。看到experimentData更多细节。




protocolData: Object of class "AnnotatedDataFrame" containing equipment-generated variables (inherited from "eSet"). See protocolData for more details.
protocolData类"AnnotatedDataFrame"包含设备生成的变量（从"eSet"继承）的对象。看到protocolData更多细节。




processingData: Object of class "MSnProcess" that records all processing.
processingData类"MSnProcess"的记录对象的所有处理。




.cache: Object of class environment used to
.cache：Object类的environment使用




.__classVersion__: Object of class "Versions" describing the versions of the class.
.__classVersion__：Object类的"Versions"描述类的版本。


延伸----------Extends----------

Class "VersionedBiobase", directly. Class "Versioned", by class "VersionedBiobase", distance 2.
类"VersionedBiobase"，直接。类"Versioned"，类“VersionedBiobase”，距离为2。


方法----------Methods----------

Methods defined in derived classes may override the methods described here.
在派生类中定义的方法可能会覆盖这里所描述的方法。




[ signature(x = "pSet"): Subset current object and
[signature(x = "pSet")：当前对象的子集和




[[ signature(x = "pSet"): Direct access to individual
[[signature(x = "pSet")：直接访问单个




abstract Access abstract in experimentData.
experimentData抽象访问抽象。




assayData signature(object = "pSet"): Access the
assayDatasignature(object = "pSet")：进入




desciption signature(x = "pSet"): Synonymous with
desciptionsignature(x = "pSet")“的代名词




dim signature(x = "pSet"): Returns the dimensions of
朦胧signature(x = "pSet")：返回的尺寸




experimentData signature(x = "pSet"): Access details
experimentDatasignature(x = "pSet")：访问细节




featureData signature(x = "pSet"): Access the
featureDatasignature(x = "pSet")：进入




fData signature(x = "pSet"): Access feature data
fdata中signature(x = "pSet")：访问特征数据




featureNames signature(x = "pSet"): Coordinate access of feature names (e.g spectra, peptides or proteins) in
featureNamessignature(x = "pSet")：协调接入功能的名称（如光谱，多肽或蛋白质）




fileNames signature(object = "pSet"): Access file
文件名signature(object = "pSet")：Access文件




fromFile signature(object = "pSet"): Access raw data file indexes (to be found in the 'codeprocessingData' slot) from
FROMFILEsignature(object = "pSet")：访问原始数据文件索引（在发现“codeprocessingData插槽）




centroided signature(object = "pSet"): Indicates whether individual spectra are centroided ('TRUE') of uncentroided ('FALSE'). Use centroided(object) <- value to update a whole experiment, ensuring that object and value
centroidedsignature(object = "pSet")：指示是否个别光谱centroided的uncentroided（“假”）（“真”）。使用centroided(object) <- value更新整个实验，确保object和value




fvarMetadata signature(x = "pSet"): Access metadata
fvarMetadatasignature(x = "pSet")：访问元数据




fvarLabels signature(x = "pSet"): Access variable
fvarLabelssignature(x = "pSet")：访问的变量




length signature(x = "pSet"): Returns the number of
长度signature(x = "pSet")：返回




notes signature(x = "pSet"):  Retrieve and unstructured notes associated with pSet in the
票据signature(x = "pSet")：检索和非结构化注意到在用pSet




pData signature(x = "pSet"): Access sample data
PDATAsignature(x = "pSet")：访问样本数据




phenoData signature(x = "pSet"): Access the
phenoDatasignature(x = "pSet")：进入




processingData signature(object = "pSet"): Access the
processingDatasignature(object = "pSet")：进入




protocolData signature(x = "pSet"): Access the
protocolDatasignature(x = "pSet")：进入




pubMedIds signature(x = "pSet"): Access PMIDs in
pubMedIdssignature(x = "pSet")：的访问PMIDs在




sampleNames signature(x = "pSet"): Access sample names
sampleNamessignature(x = "pSet")：访问样本名




spectra signature(x = "pSet"): Access the
光谱signature(x = "pSet")：进入




varMetadata signature(x = "pSet"): Access metadata
varMetadatasignature(x = "pSet")：访问元数据




varLabels signature(x = "pSet"): Access variable
varLabelssignature(x = "pSet")：访问的变量




acquisitionNum signature(object = "pSet"): Accessor
acquisitionNumsignature(object = "pSet")：存取




collisionEnergy signature(object = "pSet"): Accessor
collisionEnergysignature(object = "pSet")：存取




intensity signature(object = "pSet"): Accessor for
强度signature(object = "pSet")：存取




msInfo signature(object = "pSet"): Prints the MIAPE-MS
MSINFOsignature(object = "pSet")：打印的MIAPE的质谱




msLevel signature(object = "pSet"): Accessor for
msLevelsignature(object = "pSet")：存取




mz signature(object = "pSet"): Accessor for spectra
MZsignature(object = "pSet")：光谱存取




peaksCount signature(object = "pSet"): Accessor for
peaksCountsignature(object = "pSet")：存取




peaksCount signature(object = "pSet", scans =
peaksCount的<code>签名（对象=“PSET”扫描=




polarity signature(object = "pSet"): Accessor for MS1
极性signature(object = "pSet")：取值为MS1的




precursorCharge signature(object = "pSet"): Accessor
precursorChargesignature(object = "pSet")：存取




precursorIntensity signature(object = "pSet"): Accessor
precursorIntensitysignature(object = "pSet")：存取




precursorMz signature(object = "pSet"): Accessor
precursorMzsignature(object = "pSet")：存取




precScanNum signature(object = "pSet"): Accessor
precScanNumsignature(object = "pSet")：存取




rtime signature(object = "pSet"): Accessor for spectra
RTIMEsignature(object = "pSet")：光谱存取




tic signature(object = "pSet"): Accessor for spectra
抽动signature(object = "pSet")：光谱存取




header signature(object = "pSet"): Returns a data
头signature(object = "pSet")：返回一个数据




header signature(object = "pSet", scans = "numeric"): Returns a data frame containing scans spectra parameters
头signature(object = "pSet", scans = "numeric")：返回一个数据框包含scans光谱参数


作者（S）----------Author(s)----------



Laurent Gatto &lt;lg390@cam.ac.uk&gt;




参考文献----------References----------



参见----------See Also----------

"MSnExp" for an instantiatable application of pSet.
"MSnExp"应用程序为pSetinstantiatable的。


举例----------Examples----------


showClass("pSet")

转载请注明:出自 生物统计家园网(http://www.biostatistic.net)。


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