Man pages for Biobase
Biobase: Base functions for Bioconductor
| abstract | Retrieve Meta-data from eSets and ExpressionSets. |
| addVig2Menu | Add Menu Items to an Existing/New Menu of Window |
| Aggregate | A Simple Aggregation Mechanism. |
| annotatedDataFrameFrom-methods | Methods for Function annotatedDataFrameFrom in Package... |
| anyMissing | Checks if there are any missing values in an object or not |
| assayData | Retrieve assay data from eSets and ExpressionSets. |
| Biobase-package | Biobase Package Overview |
| cache | Evaluate an expression if its value is not already cached. |
| channel | Create a new ExpressionSet instance by selecting a specific... |
| channelNames | Retrieve and set channel names from object |
| class.aggregator | A Simple Class for Aggregators |
| class.AnnotatedDataFrame | Class Containing Measured Variables and Their Meta-Data... |
| class.AssayData | Class "AssayData" |
| class.characterORmiame | Class to Make Older Versions Compatible |
| class.container | A Lockable List Structure with Constraints on Content |
| class.eSet | Class to Contain High-Throughput Assays and Experimental... |
| class.ExpressionSet | Class to Contain and Describe High-Throughput Expression... |
| class.MIAME | Class for Storing Microarray Experiment Information |
| class.MIAxE | MIAxE objects |
| class.MultiSet | Class to Contain and Describe High-Throughput Expression... |
| class.NChannelSet | Class to contain data from multiple channel array... |
| class.SnpSet | Class to Contain Objects Describing High-Throughput SNP... |
| classVersion | Retrieve information about versioned classes |
| class.Versioned | Class "Versioned" |
| class.VersionedBiobase | Class "VersionedBiobase" |
| class.Versions | Class "Versions" |
| class.VersionsNull | Class "VersionsNull" |
| contents | Function to retrieve contents of environments |
| copyEnv | List-Environment interactions |
| copySubstitute | Copy Between Connections or Files with Configure-Like... |
| createPackage | Create a Package Directory from a Template |
| data.aaMap | Dataset: Names and Characteristics of Amino Acids |
| data.geneData | Sample expression matrix and phenotype data.frames. |
| data.reporter | Example data.frame representing reporter information |
| data.sample.ExpressionSet | Dataset of class 'ExpressionSet' |
| data.sample.MultiSet | Data set of class 'MultiSet' |
| defunct | Biobase Deprecated and Defunct |
| description | Retrieve and set overall experimental information eSet-like... |
| dumpPackTxt | Dump Textual Description of a Package |
| esApply | An apply-like function for ExpressionSet and related... |
| exprs | Retrieve expression data from eSets. |
| featureData | Retrieve information on features recorded in eSet-derived... |
| featureNames | Retrieve feature and sample names from eSets. |
| getPkgVigs | List Vignette Files for a Package |
| internals | Internals |
| isCurrent | Use version information to test whether class is current |
| isUnique | Determine Unique Elements |
| isVersioned | Determine whether object or class contains versioning... |
| lcSuffix | Compute the longest common prefix or suffix of a string |
| listLen | Lengths of list elements |
| makeDataPackage | Make an R package from a data object |
| matchpt | Nearest neighbor search. |
| multiassign | Assign Values to a Names |
| note | Informational Messages |
| notes | Retrieve and set eSet notes. |
| openPDF | Open PDF Files in a Standard Viewer |
| openVignette | Open a Vignette or Show Vignette Selection Menu |
| package.version | Report Version of a Package |
| phenoData | Retrieve information on experimental phenotypes recorded in... |
| protocolData | Protocol Metadata |
| read.AnnotatedDataFrame | Read and write 'AnnotatedDataFrame' |
| readExpressionSet | Read 'ExpressionSet' |
| read.MIAME | Read MIAME Information into an Instance of Class 'MIAME' |
| reverseSplit | A function to reverse the role of names and values in a list. |
| rowMedians | Calculates the median for each row in a matrix |
| rowQ | A function to compute empirical row quantiles. |
| ScalarObject-class | Utility classes for length one (scalar) objects |
| selectChannels | Create a new NChannelSet instance by selecting specific... |
| selectSome | Extract elements of a vector for concise rendering |
| snpCall | Get and retrieve SNP call and call probability data. |
| storageMode | Retrieve or set storage mode for eSets. |
| strbreak | Break Character Strings to Fit Width |
| subListExtract | Extract the same element from the sublists of a list |
| testBioCConnection | A function to check internet connectivity to Bioconductor |
| updateObjectTo | Update an object to the class definition of a template |
| updateOldESet | Update previously created eSet object to current eSet... |
| userQuery | A function to query the user for input |
| validMsg | Conditionally append result to validity message |
