TheoreticalGC-class {ngsReports} | R Documentation

## The TheoreticalGC Object Class

### Description

Contains Theoretical GC content for a selection of species

### Details

Estimates are able to be retained for genomic and transcriptomic sequences. Values are stored as frequencies.

### Value

An object of class TheoreticalGC

### Slots

`Genome`

  A `data.frame` containing theoretical GC content for genomic sequences

`Transcriptome`

  A `data.frame` containing theoretical GC content for transcriptomic sequences

`mData`

  A `data.frame` containing metadata about all species in the object

### Examples

    ## How to form an object using your own fasta file
    faDir <- system.file("extdata", package = "ngsReports")
    faFile <- list.files(faDir, pattern = "fasta", full.names = TRUE)
    gen_df <- estGcDistn(faFile, n = 200)
    gen_df <- dplyr::rename(gen_df, Athaliana = Freq)
    mData_df <-
        data.frame(Name = "Athaliana", Genome = TRUE, Transcriptome = FALSE)
    tr_df <- data.frame()
    myGC <- new(
       "TheoreticalGC", Genome = gen_df, Transcriptome = tr_df, mData = mData_df)

[Package ngsReports version 1.4.2 Index]