StatisticsForPREDAFromdataframe {PREDA} | R Documentation

## Function to create a StatisticsForPREDA objet from a dataframe

### Description

Function to create a StatisticsForPREDA objet from a dataframe

### Usage

    StatisticsForPREDAFromdataframe(StatisticsForPREDA_dataframe, ids_column = NULL,
    statistic_columns = NULL, analysesNames = NULL, testedTail =
    c("upper", "lower", "both"))

### Arguments

`StatisticsForPREDA_dataframe` | Input dataframe containing statistics on genomics data.
`ids_column` | Specify the column from the input dataframe with gene (or other genomic features) ids. Can be specified using column index (numeric) or column name (character).
`statistic_columns` | Specify the column (or columns) from the input dataframe with gsta.enomic data statistics that will be included in the statisticsForPREDA object. Can be specified using column index (numeric) or column name (character). If NULL (default), all columns excluding ids_column will be considered as input statistics
`analysesNames` | Names (labels) to be associated to each input statistic. If NULL the column names for statistics_columns will be used.
`testedTail` | Specify what tail of the distribution will be tested for significantly extreme values in PREDA analysis. Possible values are "both", "upper" or "lower".
`...` | any other parameter for read.table function that could be useful for parsing the input file, such as "sep", "quote", "header", "na.strings" and other parameters.

### Details

A dataframe is parsed and a statisticsForPREDA object is built using contained data.

### Value

A statisticsForPREDA object

### Author(s)

Francesco Ferrari

### See Also

`StatisticsForPREDA`

### Examples

      ## Not run:
    require(PREDAsampledata)

    CNdataPath <- system.file("sampledata", "CopyNumber", package =
    "PREDAsampledata")

    CNdataFile <- file.path(CNdataPath , "CNAG_data_PREDA.txt")

    CNannotationFile <- file.path(CNdataPath , "SNPAnnot100k.csv")

    CNStatisticsForPREDA<-StatisticsForPREDAFromdataframe(file=CNdataFile,
    ids_column="AffymetrixSNPsID", testedTail="both", sep="\t",
    header=TRUE)

    ## End(Not run)

[Package PREDA version 1.38.0 Index]