tetra

Calculate tetranucleotide signature of sequences.

Produces tetranucleotide signatures for all sequences within a FASTA file. Tetranucleotide signatures are required by the tetra_plot, dist_plot, and outliers commands.

Arguments

usage: checkm tetra [-h] [-t THREADS] [-q] seq_file output_file

Calculate tetranucleotide signature of sequences.

positional arguments:
  seq_file              sequences used to generate bins (fasta format)
  output_file           print results to file

options:
  -h, --help            show this help message and exit
  -t, --threads THREADS
                        number of threads (default: 1)
  -q, --quiet           suppress console output

Example: checkm tetra seqs.fna tetra.tsv

Example

checkm tetra seqs.fna tetra.tsv