shouldShowOripTab

Determines whether the Oregon (ONPRC)-specific ORIP Reporting tab should be
shown in the application navigation. ORIP (Office of Research Infrastructure
Programs) grant reporting is specific to ONPRC, so the tab is shown only when
an actual site configuration file is present and it identifies the
colony as ONPRC. The <code>getSiteInfo</code> default fallback
(<code>center = "ONPRC"</code> when no configuration file exists) does NOT show the
tab.

Provides genetic tools for colony management and is a derivation
of the work in Amanda Vinson and Michael J Raboin (2015)
<https://pmc.ncbi.nlm.nih.gov/articles/PMC4671785/> "A Practical
Approach for Designing Breeding Groups to Maximize Genetic Diversity in a
Large Colony of Captive Rhesus Macaques ('Macaca' 'mulatta')".
It provides a 'Shiny' application with an exposed API.
The application supports five groups of functions:
(1) Quality control of studbooks contained in text files or 'Excel'
workbooks and of pedigrees within 'LabKey' Electronic Health Records
(EHR);
(2) Creation of pedigrees from a list of animals using the 'LabKey' EHR
integration;
(3) Creation and display of an age by sex pyramid plot of the living
animals within the designated pedigree;
(4) Generation of genetic value analysis reports; and
(5) Creation of potential breeding groups with and without proscribed sex
ratios and defined maximum kinships.

R. Mark Sharp

nprcgenekeepr

Genetic Tools for Colony Management

Michael Raboin

Terry Therneau

Amanda Vinson

Matthew Schultz

Southwest National Primate Research Center NIH grant P51 RR13986 

Oregon National Primate Research Center grant P51 OD011092 

shouldShowOripTab function

<dl><dt>center</dt>
<dd>Character scalar naming the colony center, as returned by
<code>getSiteInfo()$center</code> (e.g. "ONPRC" or "SNPRC"). <code>NULL</code>, missing
values, or any value other than "ONPRC" yield FALSE.</dd>
<dt>hasConfigFile</dt>
<dd>Logical scalar indicating whether an actual site
configuration file is present (e.g.
<code>file.exists(getSiteInfo()$configFile)</code>). When FALSE the colony center
is the default fallback and the tab is not shown.</dd></dl>

Arguments

Determine if the ORIP Reporting tab should be displayed — shouldShowOripTab

<dl>

<dt>center</dt>
<dd>Character scalar naming the colony center, as returned by
<code>getSiteInfo()$center</code> (e.g. "ONPRC" or "SNPRC"). <code>NULL</code>, missing
values, or any value other than "ONPRC" yield FALSE.</dd>


<dt>hasConfigFile</dt>
<dd>Logical scalar indicating whether an actual site
configuration file is present (e.g.
<code>file.exists(getSiteInfo()$configFile)</code>). When FALSE the colony center
is the default fallback and the tab is not shown.</dd>

</dl>

shouldShowOripTab: Determine if the ORIP Reporting tab should be displayed

Description

Usage

Value

Arguments

See Also

Examples