fix_arb_fasta.rst

fix_arb_fasta.py

fix_arb_fasta.py -- Reformat ARB FASTA files

Description:

This script fixes ARB FASTA formatting by repairing incorrect line break chararcters, stripping spaces and replacing "." with "-" characters.

Usage: fix_arb_fasta.py [options]

Input Arguments:

Note

[REQUIRED]

-f, --input_fasta_fp

Path to the input fasta file

Output:

The reformatted sequences are written to stdout.

Example:

Fix the input ARB FASTA format file arb.fasta and print the result to stdout:

fix_arb_fasta.py -i arb.fasta