Assaydata
WebNov 8, 2024 · assayData: Retrieve assay data from eSets and ExpressionSets. In Biobase: Biobase: Base functions for Bioconductor Description Usage Arguments Value Author (s) … WebSep 11, 2012 · i <- 2 dat <- assayData (data.lair)$lair.predicted [ , i] any (!is.na (dat)) # [1] FALSE You can run your loop, if you don't create density plots for these vectors. Check whether the vectors contain a sufficient amount of data points. This is a slightly modified version of your code:
Assaydata
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WebphenoData: variables describing sample phenotypes (i.e. columns in assayData), including clinical/survival information about samples: "time" (i.e. survival time in days), "status" (i.e., survival status: 0=alive; 1=dead), "Age" (the patient age in years), "Gender" (the patient gender: male/female), "TCGA_tumor_type", "Tumor_stage", "Tumor_grade" WebThe online MyAssays service processes data and outputs results from your supplied raw measurement data. For maximum flexibility, sample measurement data for analysis can …
WebR/GEO_AnnotateDesignEset.R defines the following functions: AnnotateDesignEset. AnnoEset: Annotate EsetList via bioconductor AnnotateJournal: Annotate journal id via crawler AnnotateStringPPI: Re-annotation for ppi network from STRING web base_common.annot: latest annotation contains ENSEMBL and other information of... WebNov 10, 2024 · Get and Set Assay Data Description General accessor and setter functions for Assay objects. GetAssayData can be used to pull information from any of the …
WebNov 13, 2016 · When I try to put assaydata and phenodata together to make expressionset, I get an error: Error in validObject (.Object) : " invalid class ""ExpressionSet"" object: … WebassayData: Object of class "assayData" containing a matrix with equal with column number equal to nrow (phenoData). assayData must contain a matrix exprs with rows represening features (e.g., reporters ions) and columns representing samples. See the "AssayData" class, exprs and assayData accessor for more details.
WebAug 24, 2024 · The reprex, provided doesnt seem to reproduce your issue. We are left with assumptions; there must a be failure case that does not produce a data.frame from which a select can be made.
WebFor label transfer, we perform the following steps: Create a binary classification matrix, the rows corresponding to each possible class and the columns corresponding to the anchors. If the reference cell in the anchor pair is a member of a certain class, that matrix entry is filled with a 1, otherwise 0. Multiply this classification matrix by ... golf course richmond kyWebFeb 28, 2024 · Does the example from the documentation work? mapfile <- system.file("extdata", "master_map.txt", package = "phyloseq") import_qiime_sample_data(mapfile) healing of the nations revelationWebMay 26, 2024 · Requesting help with SumarizedExperiment · Issue #1585 · satijalab/seurat · GitHub. satijalab / seurat Public. Notifications. Fork 814. Star 1.8k. Code. Issues 225. Pull requests 18. healing of the paralysed manWebDescription This generic function accesses assay data stored in an object derived from the eSet or ExpressionSet class. Usage assayData (object) assayData (object) <- value Arguments Value assayData applied to eSet -derived classes returns a list or environment; applied to ExpressionSet, the method returns an environment. golf course richmond caWebassayData: Object of class AssayData containing the raw data, which will be at minimum a matrix of intensity values. This slot can also hold a matrix of standard errors if the 'sd' … healing of the paralysed man activitiesWebDescription. General accessor and setter functions for Assay objects. GetAssayData can be used to pull information from any of the expression matrices (eg. “counts”, “data”, or “scale.data”). SetAssayData can be used to replace one of these expression matrices. golf course richmond moWebopossom.new 5 •database.id.type: type of rowname identifier in biomaRt database; obsolete if database.dataset="auto" (character) •activated.modules (list): activates/deactivates pipeline functionalities: healing of the paralytic in the gospels