rRNAFinder

rRNAFinder is a Python tool designed to identify rRNA genes in the genome.

Installation

This package relies on NCBI BLAST and BLAT. Please ensure these are installed prior to installing rRNAFinder.

To install rRNAFinder using pip, use the following command:

pip install rRNAFinder

Usage

usage: rRNAFinder [-h] [-s {plants,animals,fungi,bacteria}] [-l LOG_FILE] [-o OUTPUT_DIR] fasta_file

Identify rRNA genes in the genome

positional arguments:
  fasta_file            a fasta file

optional arguments:
  -h, --help            show this help message and exit
  -s {plants,animals,fungi,bacteria}, --species {plants,animals,fungi,bacteria}
  -l LOG_FILE, --log_file LOG_FILE
                        path for log file (default: None)
  -o OUTPUT_DIR, --output_dir OUTPUT_DIR
                        output prefix (default: rRNA_finder)

Currently only plants genomes are supported