Draw a Protter plot
This is a wrapper around Protter web service for LowMACA class objects that draw a protter style plot.
an object of class LowMACA
a character string that identifies the file name where protter plot will be stored. Default "protter.png"
a numeric value in the interval (0 , 1] that identifies the significant mutations. Default 0.05
a numeric value in the range of 0-1 that defines the threshold of trident conservation score to include the specified position. The default value is inherited from the slot entropy, whose default is 0.1
Using the information in the slot
alignment, a request is send to Protter server.
Protter will predict a possible sencondary structure for the consensus sequence
(if possible) and highlights the significant clusters of mutations found by LowMACA (if any).
A significant pvalue is colored in orange, a significant qvalue is colored in red.
Stefano de Pretis , Giorgio Melloni
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