readNormInput {ISoLDE} | R Documentation

## READ THE NORMALIZED DATA FILE

### Description

Checks and loads into a `data.frame` the input file containing normalized allele-specific read (ASR) counts so that it can be input into `filterT` and `isolde_test`.

### Usage

    readNormInput(norm_file, del = "\t", rownames = TRUE, colnames =
    TRUE, dec = ".")

### Arguments

`norm_file` | A character-delimited input file containing normalized counts such as described in `normASRcounts_file`.
`del` | Specifies the delimiter for the input file, usually a semi-colon ";", a coma "," or a tabulation "\t". (default : "\t"). Note : None of your data values must contain this delimiter (be specially careful in gene names).
`rownames` | Specifies if the file contains some row names to consider. Possible values: TRUE or FALSE (default: TRUE).
`colnames` | Specifies if the file contains some column names to consider. Possible values: TRUE or FALSE (default: TRUE).
`dec` | Specifies the character used in the file for decimal mark (default : ".").

### Value

A `data.frame` containing normalized ASR counts from your input file.

### Author(s)

Marine Rohmer marine.rohmer@mgx.cnrs.fr,
Christelle Reynès christelle.reynes@igf.cnrs.fr

### See Also

`normASRcounts_file.txt`: the normalized ASR count file on which to run the
`readNormInput` function.
`readRawInput`: a similar function for raw (non-normalized) ASR count files.

### Examples

    # character-delimited input file containing normalized ASR counts
    normfile <- system.file("extdata", "normASRcounts_file.txt",
    package = "ISoLDE")
    # loading it into a data.frame using the readNormInput function
    nbreadnorm <- readNormInput(norm_file = normfile, del = "tab",
    rownames = TRUE, colnames = TRUE, dec = ".")

[Package ISoLDE version 1.12.0 Index]