GenomicRegionsFromdataframe {PREDA} | R Documentation

## Function to create a GenomiRegions object from a dataframe

### Description

Function to create a GenomiRegions object from a dataframe

### Usage

    GenomicRegionsFromdataframe(GenomicRegions_dataframe, ids_column=NULL, chr_column,
    start_column, end_column, chromosomesNumbers=NULL,
    chromosomesLabels=NULL, chromosomesLabelsInput=NULL)

### Arguments

`GenomicRegions_dataframe` | Dataframe object containing the annotations for genomic regions
`ids_column` | Specify the column from the input dataframe with (optional) ids for genomic regions. Can be specified using column index (numeric) or column name (character).
`chr_column` | Specify the column from the input dataframe with chromosome annotations fields. Can be specified using column index (numeric) or column name (character).
`start_column` | Specify the column from the input dataframe with genomic start position for each genomic region. Can be specified using column index (numeric) or column name (character).
`end_column` | Specify the column from the input dataframe with genomic end position for each genomic region. Can be specified using column index (numeric) or column name (character).
`chromosomesNumbers` | Numeric vector to specify the list of numeric values to be associated to each chromosome (especially useful for chromosomes not associated to a number such as chr X or Y)
`chromosomesLabels` | Character vector to specify the list of character labels to be associated to each chromosome (especially useful for chromosomes not associated to a number such as chr X or Y)
`chromosomesLabelsInput` | Character vector to specify the list of character labels associated to each chromosome in the input. Particularly useful when non numeric character strings are associated to each chromosome in the input file: e.g. "chr3" for chromosome "3".

### Value

An object of class `"GenomicRegions"`

### Author(s)

Francesco Ferrari

### See Also

`"GenomicRegions"`

[Package PREDA version 1.26.1 Index]