Man page - fetch_refseq_bacterial_genomes_by_name(1)

Packages contains this manual

Package:  cct
apt-get install cct

Manuals in package:
• create_zoomed_maps(1)
• redraw_maps(1)
• build_blast_atlas(1)
• remove_long_seqs(1)
• fetch_refseq_bacterial_genomes_by_name(1)
• convert_vcf_to_features(1)
• remove_short_seqs(1)
• build_blast_atlas_all_vs_all(1)
• fetch_all_refseq_mitochondrial_genomes(1)
• fetch_all_refseq_chloroplast_genomes(1)
• ncbi_search(1)
• fetch_genome_by_accession(1)
• fetch_all_refseq_bacterial_genomes(1)
• cgview_comparison_tool(1)
Documentations in package:
• cct

Manual

FETCH_REFSEQ_BACTERIAL_GENOMES_BY_NAME

NAME
DESCRIPTION
USAGE:
DESCRIPTION:
REQUIRED ARGUMENTS:
OPTIONAL ARGUMENTS:
EXAMPLE:
AUTHOR

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NAME

fetch_refseq_bacterial_genomes_by_name - visually comparing bacterial, plasmid, chloroplast, or mitochondrial sequences

DESCRIPTION

USAGE:

fetch_refseq_bacterial_genomes_by_name -n STRING -o DIR

DESCRIPTION:

Downloads a GenBank record using a partial or complete bacterial species name. The --min and --max options can be used to restrict the size of the returned sequences.

REQUIRED ARGUMENTS:

-n , --name STRING

Complete or partial name of the bacterial species.

-m , --min INTEGER

Records with a sequence length shorter than this value will be ignored.

-x , --max INTEGER

Records with a sequence length longer than this value will be ignored.

-o , --output DIR

The output directory to download the GenBank file into.

OPTIONAL ARGUMENTS:

	-h , --help

Show this message.

EXAMPLE:

fetch_refseq_bacterial_genomes_by_name -n ’Escherichia*’ -o my_project/comparison_genomes

AUTHOR

This manpage was written by Andreas Tille for the Debian distribution and can be used for any other usage of the program.

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