/ 
Bio-KEGGI-v0.0.2
River stage zero No dependents
/ Bio::KEGG::genome

NAME

Bio::KEGG::genome - Perl module to fetch details of KEGG file 'genome'.

DESCRIPTION

Fetch data from a Bio::KEGGI::genome object

METHODS

anno

Name:   anno
Desc:   Get KEGG entry ANNOTATION information.
Usage:  $anno = $o_kegg->anno()
Args:
Return: A string

taxid

Name:   taxid
Desc:   Get KEGG entry taxonomy id.
Usage:  $taxid = $o_kegg->taxid()
Args:
Return: A string

taxonomy

Name:   taxonomy
Desc:   Get KEGG entry taxonomy information.
usage:  $taxonomy = $o_kegg->taxonomy
Args:
Return: A string

data_src

Name:   data_src
Desc:   Get KEGG entry DATA_SOURCE information
Usage:  $data_src = $o_kegg->data_src()
Args:
Return: A string

comment

Name:   comment
Desc:   Get KEGG entry COMMENT.
usage:  $comment = $o_kegg->comment()
Args:
Return: A string

origin_db

Name:   origin_db
Desc:   Get KEGG entry ORIGINAL_DB.
usage:  $origin_db = $o_kegg->original_db()
Args:
Return: A string

component

Name:   component
Desc:   Get KEGG entry CHROMOSOME and PLASMID information.

$rh_component = [
    {
        'category'    => $category, # 'chromosome' or 'plasmid'
        'is_circular' => $is_cir,  # 0 or 1
        'name'        => $name,
        'refseq'      => $refseq_id,
        'length'      => $length
    },
    ...
]

Usage:  Bio::KEGG::genome->component()
Args:
Return: A reference to an array

statistics

Name:   statistics
Disc:   Get KEGG entry STATISTICS information.
        
        $rh_statistics = {
            'nt'  => $nt,  # Number of nucleotides
            'prn' => $prn, # Number of protein genes
            'rna' => $rna, # Number of RNA genes 
        }

Usage:  $o_kegg->statistics()
Args:
Return: A reference to a hash.

anno Name: anno Desc: Get KEGG entry ANNOTATION information. Usage: $anno = $o_kegg->anno() Args: Return: A string

taxid Name: taxid Desc: Get KEGG entry taxonomy id. Usage: $taxid = $o_kegg->taxid() Args: Return: A string

taxonomy Name: taxonomy Desc: Get KEGG entry taxonomy information. usage: $taxonomy = $o_kegg->taxonomy Args: Return: A string

data_src Name: data_src Desc: Get KEGG entry DATA_SOURCE information Usage: $data_src = $o_kegg->data_src() Args: Return: A string

comment Name: comment Desc: Get KEGG entry COMMENT. usage: $comment = $o_kegg->comment() Args: Return: A string

origin_db Name: origin_db Desc: Get KEGG entry ORIGINAL_DB. usage: $origin_db = $o_kegg->original_db() Args: Return: A string

component Name: component Desc: Get KEGG entry CHROMOSOME and PLASMID information. ------------------------------------------------------------------ $rh_component = [ { 'category' => $category, # 'chromosome' or 'plasmid' 'is_circular' => $is_cir, # 0 or 1 'name' => $name, 'refseq' => $refseq_id, 'length' => $length }, ... ] ------------------------------------------------------------------

Usage:  Bio::KEGG::genome->component()
Args:
Return: A reference to an array

statistics Name: statistics Disc: Get KEGG entry STATISTICS information. ------------------------------------------------------------------ $rh_statistics = { 'nt' => $nt, # Number of nucleotides 'prn' => $prn, # Number of protein genes 'rna' => $rna, # Number of RNA genes } ------------------------------------------------------------------ Usage: $o_kegg->statistics() Args: Return: A reference to a hash.