getsize <sequences> [options]
The program getsize prints statistics about or (higher-order) shuffles sequences read from a FASTA file. FASTA sequences.
A file in FASTA format. If the filename is given as "-", then the program reads from standard input.
Writes statistics about the sequences to standard output.
| Option | Parameter | Description | Default Behaviour |
|---|---|---|---|
| General Options | |||
| -codons | Print frame 0 codon usage. | ||
| -dna | Print DNA frequencies in background file format. | ||
| -f | Print letter frequences. | ||
| -ft | Print letter frequences in a LaTex table. | ||
| -l | Just print the length of each sequence. | ||
| -f | Do not print warnings about duplicate sequences. | ||
| -prot | Print protein frequencies in background file format. | ||
| -x | Translate DNA in 6 frames. | ||
| -shuf | k-let | Shuffle and print sequences preserving k-let frequencies. Based on the ushuffle algorithm of Jiang, Anderson Gillespie and Mayne (c) 2007. | Do not shuffle or print sequences. |
| -copies | k-let | Print ncopies shuffled copies of each sequence. Requires -shuf. | Print only one shuffled copy of each sequence. |