LIPID Metabolites And Pathways Strategy

NAME

ChainAbbrev - Methods for processing chain abbreviations

SYNOPSIS

use ChainAbbrev;

use ChainAbbrev qw(:all);

DESCRIPTION

ChainAbbrev module provides these methods:

METHODS

ChainAbbrevNameExists

$Status = ChainAbbrevNameExists($ChainAbbrev);

Return 1 or 0 based on whether it's a supported chain name.

ExpandChainAbbrev

$AbbrevArrayRef = ExpandChainAbbrev($Abbrev);

Return a reference to an array containing complete chain abbreviations. Wild card characters in chain abbreviation name are expanded to generate fully qualified chain abbreviations.

GetChainAbbrevToNameMap

$AbbrevNameHashRef = GetChainAbbrevToNameMap();

Return a reference to hash with chain abbreviation/name as key/value pair.

GetChainLenAbbrevSupportedMap

$ChainLenHashRef = GetChainLenAbbrevSupportedMap();

Return a reference to hash with supported chain length as hash key.

GetChainLenAbbrevDbleBondGeometyDataMap

$ChainLenDblBondHashRef = GetChainLenAbbrevDbleBondGeometyDataMap();

Return a reference to hash containing information about chain length, number of double bonds and geometry of double bonds.

GetSubstituentsAbbrevToNameMap

$AbbrevNameHashRef = GetSubstituentsAbbrevToNameMap();

Return a reference to hash with substituents abbreviation/name as key/value pair.

GetSupportedChainLenList

$ChainLengthListRef = GetSupportedChainLenList();

Return a reference to a sorted list containing supported chain lengths.

IsAlkylChainAbbrev

$Status = IsAlkylChainAbbrev($ChainAbbrev);

Return 1 or 0 based on whether it's a alkyl chain abbreviation.

IsAlkenylChainAbbrev

$Status = IsAlkenylChainAbbrev($ChainAbbrev);

Return 1 or 0 based on whether it's a alkenyl chain abbreviation.

IsChainAbbrevOkay

$Status = IsChainAbbrevOkay($ChainAbbrev);

Return 1 or 0 based on whether chain abbreviation is valid.

IsWildCardInChainAbbrev

$Status = IsWildCardInChainAbbrev($ChainAbbrev);

Return 1 or 0 based on whether chain abbreviation contains any wild card character.

ParseChainAbbrev

($ChainLength, $DoubleBondCount, $DoubleBondGeometry) = ParseChainAbbrev($ChainAbbrev);

Parse chain abbreviation and return these values: chain length, number of double bonds, and geometry of double bonds.

ParseSubstituentAbbrev

($Pos, $Name, $StereoChemistry) = ParseSubstituentAbbrev($SubstituentAbbrev);

Parse substituent abbreviation and return these values: position of the substituent on the chain, name, and stereochemistry of the substituent.

AUTHOR

Manish Sud

CONTRIBUTOR

Eoin Fahy

SEE ALSO

LMAPSStr.pm, ChainStr.pm

COPYRIGHT

Copyright (C) 2006. The Regents of the University of California. All Rights Reserved.