download_patric_db

Analyse, plot, and tabulate antimicrobial minimum inhibitory concentration (MIC) data.
Validate the results of an MIC experiment by comparing observed MIC values to
a gold standard assay, in line with standards from the International Organization for
Standardization (2021) <https://www.iso.org/standard/79377.html>. Perform MIC prediction from
whole genome sequence data stored in the Pathosystems Resource Integration Center (2013)
<doi:10.1093/nar/gkt1099> database or locally.

Alessandro Gerada

Analysis of Antimicrobial Minimum Inhibitory Concentration Data

download_patric_db function

<dl><dt>save_path</dt>
<dd>Save path (should be .txt)</dd>
<dt>ftp_path</dt>
<dd>PATRIC database FTP path to download</dd>
<dt>overwrite</dt>
<dd>Force overwrite</dd></dl>

Arguments

Download PATRIC database — download_patric_db

<dl>

<dt>save_path</dt>
<dd>Save path (should be .txt)</dd>


<dt>ftp_path</dt>
<dd>PATRIC database FTP path to download</dd>


<dt>overwrite</dt>
<dd>Force overwrite</dd>

</dl>

download_patric_db: Download PATRIC database

Description

Usage

Value

Arguments

Examples