diff mayachemtools/docs/modules/man3/NucleicAcids.3 @ 0:73ae111cf86f draft

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+.\" ========================================================================
+.\"
+.IX Title "NUCLEICACIDS 1"
+.TH NUCLEICACIDS 1 "2015-03-29" "perl v5.14.2" "MayaChemTools"
+.\" For nroff, turn off justification.  Always turn off hyphenation; it makes
+.\" way too many mistakes in technical documents.
+.if n .ad l
+.nh
+.SH "NAME"
+NucleicAcids
+.SH "SYNOPSIS"
+.IX Header "SYNOPSIS"
+use NucleicAcids;
+.PP
+use NucleicAcids qw(:all);
+.SH "DESCRIPTION"
+.IX Header "DESCRIPTION"
+\&\fBNucleicAcids\fR module the provides the following functions:
+.PP
+GetNucleicAcidPropertiesData, GetNucleicAcidPropertiesNames,
+GetNucleicAcids, GetNucleicAcidsByType, IsNucleicAcid, IsNucleicAcidProperty,
+IsNucleicAcidType
+.SH "Functions"
+.IX Header "Functions"
+.IP "\fBGetNucleicAcids\fR" 4
+.IX Item "GetNucleicAcids"
+.Vb 2
+\&    (@Names) = GetNucleicAcids([$NameType]);
+\&    $NamesRef = GetNucleicAcids([$NameType]);
+.Ve
+.Sp
+Returns an array or a reference to an array containing names of nucleic acids
+as a code or nucleic acid name controlled by optional parameter \fINameType\fR. By
+default, nucleic acids names are returned as the code. Possible values for
+\&\fINameType\fR: \fICode or Name\fR.
+.IP "\fBGetNucleicAcidsByType\fR" 4
+.IX Item "GetNucleicAcidsByType"
+.Vb 2
+\&    (@Names) = GetNucleicAcidsByType([$Type, $NameType]);
+\&    $NamesRef = GetNucleicAcidsByType([$Type, $NameType]);
+.Ve
+.Sp
+Returns an array or a reference to an array containing names of nucleic acids
+specified by parameter \fIType\fR as a code or name controlled by optional
+parameter \fINameType\fR. Default values for \fIType\fR: \fINucleoside\fR. Default value for
+\&\fINameType\fR: \fICode\fR. Possible values for \fIType\fR: \fINucleobase, Nucleoside, Deoxynucleoside,
+Nucleotide, Deoxynucleotide\fR. Possible values for \fINameType\fR: \fICode or Name\fR.
+.IP "\fBGetNucleicAcidPropertiesData\fR" 4
+.IX Item "GetNucleicAcidPropertiesData"
+.Vb 1
+\&    $DataHashRef = GetNucleicAcidPropertiesData($NucleicAcidID);
+.Ve
+.Sp
+Returns a reference to hash containing property names and values for a specified
+\&\fINucleicAcidID\fR.
+.IP "\fBGetNucleicAcidPropertyName\fR" 4
+.IX Item "GetNucleicAcidPropertyName"
+.Vb 1
+\&    $Value = GetNucleicAcid<PropertyName>($NucleicAcidID);
+.Ve
+.Sp
+Returns nucleic acid property value for a specified \fINucleicAcidID\fR. This function is
+implemented on-the-fly using Perl's \s-1AUTOLOAD\s0 functionality.
+.IP "\fBGetNucleicAcidPropertiesNames\fR" 4
+.IX Item "GetNucleicAcidPropertiesNames"
+.Vb 2
+\&    @Names = GetNucleicAcidPropertiesNames([$Mode]);
+\&    $NamesRef = GetNucleicAcidPropertiesNames([$Mode]);
+.Ve
+.Sp
+Returns an array or a reference to an array containing names of properties for
+nucleic acids. Order of nucleic acids properties is controlled by optional parameter
+\&\fIMode\fR. Possible values for \fIMode\fR: \fIAlphabetical or ByGroup\fR; Default: \fIByGroup\fR.
+.IP "\fBIsNucleicAcid\fR" 4
+.IX Item "IsNucleicAcid"
+.Vb 1
+\&    $Status = IsNucleicAcid($NucleicAcidID);
+.Ve
+.Sp
+Returns 1 or 0 based on whether it's a known nucleic acid \s-1ID\s0.
+.IP "\fBIsNucleicAcidProperty\fR" 4
+.IX Item "IsNucleicAcidProperty"
+.Vb 1
+\&    $Status = IsNucleicAcid($PropertyName);
+.Ve
+.Sp
+Returns 1 or 0 based on whether it's a known nucleic acid property name.
+.IP "\fBIsNucleicAcidType\fR" 4
+.IX Item "IsNucleicAcidType"
+.Vb 1
+\&    $Status = IsNucleicAcidType();
+.Ve
+.Sp
+Returns 1 or 0 based on whether it's a known nucleic acid type.
+.SH "AUTHOR"
+.IX Header "AUTHOR"
+Manish Sud <[e-mail]>
+.SH "SEE ALSO"
+.IX Header "SEE ALSO"
+AminoAcids.pm, PeriodicTable.pm
+.SH "COPYRIGHT"
+.IX Header "COPYRIGHT"
+Copyright (C) 2015 Manish Sud. All rights reserved.
+.PP
+This file is part of MayaChemTools.
+.PP
+MayaChemTools is free software; you can redistribute it and/or modify it under
+the terms of the \s-1GNU\s0 Lesser General Public License as published by the Free
+Software Foundation; either version 3 of the License, or (at your option)
+any later version.