This module provides functions for plotting data extracted from Oxford Nanopore sequencing reads and alignments, but some of it’s functions can also be used for other applications.
FUNCTIONS
Check if a specified color is a valid matplotlib color checkvalidColor(color)
Check if a specified output format is valid checkvalidFormat(format)
Create a bivariate plot with dots, hexbins and/or kernel density estimates. Also arguments for specifying axis names, color and xlim/ylim. scatter(x, y, names, path, color, format, plots, stat=None, log=False, minvalx=0, minvaly=0)
Create cumulative yield plot and evaluate read length and quality over time timePlots(df, path, color, format)
Create length distribution histogram and density curve lengthPlots(array, name, path, n50, color, format, log=False)
Create flowcell physical layout in numpy array makeLayout()
Present the activity (number of reads) per channel on the flowcell as a heatmap spatialHeatmap(array, title, path, color, format)
INSTALLATION
pip install nanoplotterconda install -c bioconda nanoplotter
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