/ 
Metabolomics-Fragment-Annotation-0.6.3
River stage zero No dependents
/ Metabolomics::Banks::Knapsack

NAME

Metabolomics::Banks::Knapsack - Perl extension for Knapsack bank

VERSION

Version 0.2 - Adding POD

SYNOPSIS

use Metabolomics::Banks::Knapsack;

DESCRIPTION

Metabolomics::Banks::Knapsack is a full package for Perl allowing to build a generic Perl bank object from Knapsack bank resource.

EXPORT

use Metabolomics::Banks::Knapsack qw( :all ) ;

PUBLIC METHODS

Metabolomics::Banks::Knapsack

new
## Description : new
## Input : $self
## Ouput : bless $self ;
## Usage : new() ;
getMetabolitesFromSource
## Description : get the list of metabolite entries from $source file and set the Metabolomics::Banks::Knapsack object
## Input : $source (file from the metabolomics-references project)
## Output : an int as $entriesNb
## Usage : my ( $entriesNb ) = $self->getMetabolitesFromSource ( $source ) ;
METHOD buildTheoPeakBankFromEntries
## Description : building from a Metabolomics::Banks::Knapsack object, a bank integrating each potential entry in a metabolomics format (POSITIVE or NEGATIVE forms)
## Input : $queryMode [POS|NEG]
## Output : int as $entryNb
## Usage : my $nb = $oBank->buildTheoPeakBankFromEntries() ;

PRIVATE METHODS

Metabolomics::Banks::Knapsack

PRIVATE_ONLY __refKnapsackEntry__
## Description : init a new blood exposome entry
## Input : void	
## Output : refEntry
## Usage : $self->__refKnapsackEntry__() ;
PRIVATE_ONLY _getEntry_INCHIKEY
## Description : PRIVATE method _getEntry_INCHIKEY on a refKnapsackEntry object
## Input : void
## Output : $INCHIKEY
## Usage : my ( $INCHIKEY ) = $entry->_getEntry_INCHIKEY () ;
PRIVATE_ONLY _getEntry_EXACT_MASS
## Description : PRIVATE method _getEntry_EXACT_MASS on a refKnapsackEntry object
## Input : void
## Output : $EXACT_MASS
## Usage : my ( $EXACT_MASS ) = $entry->_getEntry_EXACT_MASS () ;
PRIVATE_ONLY _getEntry_KNAPSACK_ID
## Description : PRIVATE method _getEntry_CAS on a refKnapsackEntry object
## Input : void
## Output : $KNAPSACK_ID
## Usage : my ( $KNAPSACK_ID ) = $entry->_getEntry_KNAPSACK_ID () ;
PRIVATE_ONLY _getEntry_CAS
## Description : PRIVATE method _getEntry_CAS on a refKnapsackEntry object
## Input : void
## Output : $CAS
## Usage : my ( $CAS ) = $entry->_getEntry_CAS () ;
PRIVATE_ONLY _getEntry_MOLECULAR_FORMULA
## Description : PRIVATE method _getEntry_MOLECULAR_FORMULA on a refKnapsackEntry object
## Input : void
## Output : $COMPOUND_FORMULA
## Usage : my ( $COMPOUND_FORMULA ) = $entry->_getEntry_MOLECULAR_FORMULA () ;
PRIVATE_ONLY _getEntry_COMPOUND_NAME
## Description : PRIVATE method _getEntry_COMPOUND_NAME on a refKnapsackEntry object
## Input : void
## Output : $COMPOUND_NAME
## Usage : my ( $COMPOUND_NAME ) = $entry->_getEntry_COMPOUND_NAME () ;

AUTHOR

Franck Giacomoni, <franck.giacomoni at inrae.fr>

SEE ALSO

All information about Metabolomics::Fragment would be find here: https://services.pfem.clermont.inra.fr/gitlab/fgiacomoni/metabolomics-fragnot

BUGS

Please report any bugs or feature requests to bug-Metabolomics-Fragment-Annotation at rt.cpan.org, or through the web interface at https://rt.cpan.org/Public/Dist/Display.html?Name=Metabolomics-Fragment-Annotation. I will be notified, and then you'll automatically be notified of progress on your bug as I make changes.

SUPPORT

You can find documentation for this module with the perldoc command.

perldoc Metabolomics::Fragment::Annotation

ACKNOWLEDGEMENTS

Thank you to INRAE and All metabolomics colleagues.

LICENSE AND COPYRIGHT

CeCILL Copyright (C) 2019 by Franck Giacomoni

Initiated by Franck Giacomoni

followed by INRA PFEM team

Web Site = INRA PFEM