Retrieve summary statistics for a coding sequence (CDS) file — summary_cds • biomartr
Description: A summary statistics of specific CDS features is returned.

# Retrieve summary statistics for a coding sequence (CDS) file

Source: `R/summary_cds.R`
`summary_cds.Rd`

A summary statistics of specific CDS features is returned.

    summary_cds(file, organism)

## Arguments

file

  file path to a CDS file in `fasta` format.

organism

  character string specifying the organism at hand.

## Details

The summary statistics include:

- `total_seqs`:

- `nnn_abs`: The total number of NNN's (over all chromosomes/scaffolds/contigs) in all coding sequences combined

- `nnn_perc`: The percentage (relative frequency) of NNN's (over all chromosomes/scaffolds/contigs) compared to the total number of nucleotides of all coding sequences

## See also

`getCollection`, `getCDS`, `read_cds`, `summary_genome`

## Author

Hajk-Georg Drost