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.\" ========================================================================
.\"
.IX Title "Bio::Chado::NaturalDiversity::Reports 3pm"
.TH Bio::Chado::NaturalDiversity::Reports 3pm "2019-02-05" "perl v5.28.1" "User Contributed Perl Documentation"
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.SH "NAME"
Bio::Chado::NaturalDiversity::Reports \- Collection of functions for formatting Chado stock related data
.SH "SYNOPSIS"
.IX Header "SYNOPSIS"
.Vb 1
\&  use Bio::Chado::NaturalDiversity::Reports
\&
\&  my $sreport = Bio::Chado::NaturalDiversity::Reports\->new;
\&  my $data = $sreport\->phenotypes_by_trait($phenotypes);
.Ve
.SH "DESCRIPTION"
.IX Header "DESCRIPTION"
A collection of functions for formatting Chado stock related data in
different data structures which can be useful for passing to different
programs and software.  Because the Chado stock table is the key for
storing samples subjected to genotyping and phenotyping experiments,
it interacts with several other Chado modules, such as
NaturalDiversity for storing the experiment data, Project for storing
the metadata about the experiments, Phenotype for the phenotyping
values Genotype for the genotyping values.
.PP
This module generates several reports for easier access to such data.
.PP
Note that all data reports heavily rely on the Natural Diversity
schema.  The results in each report may differ based on how the
experiment data is stored in the databse.
.PP
There is no one correct way
of loading phenotyping and genotyping data in this module, however
there are some examples for 'best practice' in the \s-1GMOD\s0 Wiki
(http://gmod.org/wiki/Chado_Natural_Diversity_Module)
.SH "METHODS"
.IX Header "METHODS"
.SS "new"
.IX Subsection "new"
Make a new Reports object.
.SS "phenotypes_by_trait"
.IX Subsection "phenotypes_by_trait"
.Vb 4
\&  Usage: $self\->phenotypes_by_trait($phenotype_rs , { %args } )
\&  Desc:  generate a report of phenotype values by trait name/accession
\&  Args:  an arrayref of L<Bio::Chado::Schema::Result::Phenotype::Phenotype> ResultSets
\&         [optional] list of args to filter the report. Currently supported args are
\&
\&  Ret:   arrayref of tab delimited data
.Ve