setup_inspector

To run a QC in GWASinspector, copy a template configuration file to your machine using the <code>get_config</code> command at first, and edit it to suit your requirements.
Next, use the <code>setup_inspector</code> function to check the configuration file and import it into R.
This will create an object of the inspector class, which can then be processed using <code>run_inspector</code>.

When evaluating the results of a genome-wide association study (GWAS), it is important to perform a quality control to ensure that the results are valid, complete, correctly formatted, and, in case of meta-analysis, consistent with other studies that have applied the same analysis. This package was developed to facilitate and streamline this process and provide the user with a comprehensive report.

Alireza Ani

GWASinspector

Comprehensive and Easy to Use Quality Control of GWAS Results

Peter J. van der Most

Ahmad Vaez

Ilja M. Nolte

setup_inspector function

<dl><dt>config.file</dt>
<dd>character. Path to a configuration (.ini) file. For a sample configuration file, see <code>get_config</code>.</dd>
<dt>validate</dt>
<dd>logical. Whether to validate the object.</dd></dl>

Arguments

Importing a configuration file into R for setting the pipeline parameters — setup_inspector

<dl>

<dt>config.file</dt>
<dd>character. Path to a configuration (.ini) file. For a sample configuration file, see <code>get_config</code>.</dd>


<dt>validate</dt>
<dd>logical. Whether to validate the object.</dd>

</dl>

setup_inspector: Importing a configuration file into R for setting the pipeline parameters

Description

Usage

Value

Arguments