R: Visualization of Plasmid Profile Results

# Visualization of Plasmid Profile Results

## Documentation for package ‘Plasmidprofiler’ version 0.1.6

- DESCRIPTION file.

## Help Pages

amr_positives | Identify Antimicrobial Resistance Positive Plasmids from Blast Results
amr_presence | Adds the AMR_gene column to report
blastdata | Example Table of Blast Results
blast_parser | Blast Results Parser Function
combine_results | Combines SRST2 and Blast results into a single dataframe
create_grob | Create Heatmap Graphical Object
create_plotly | Create Plotly Object
define_colours | Defining Colours Based on a Column of Data
file_cacher | Filecacher
main | Main: Run everything
minmax | Minmax
normalize | Normalize
order_report | Order the Report
plot_heatmap | Create GGPLOT Heatmap
read_blast | Blast file import function
read_srst2 | SRST2 file import function
report | Example Complete Report after the following steps. Blast data from attached blastdata table SRST2 data from attached srst2data table
save_files | Save Files
srst2data | Example Table of SRST2 Results
subsampler | Subsetting Results
tree_maker | Create Dendrogram Based on Plasmid Content
zetner_score | Adds the Zetner Score column to report