plotMSA: Print a PDF of the MSA in a dataframe returned by the...

Description Usage Arguments Value

Description

Print a PDF of the MSA in a dataframe returned by the AlnsToDataFrame function.

Usage

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plotMSA(df, pdfname, start = 0, end = -1, showPositions = TRUE,
  useOrigColors = FALSE)

Arguments

df

A data frame returned by a call to AlnsToDataFrame.

pdfname

The name of the pdf file to output

start

Optionally subset a portion of the alignment by specifying a start column.

end

Optionally subset a portion of the alignment by specifying an end column.

useOrigColors

Whether to use my original color scheme http://colorbrewer2.org/?type=qualitative&scheme=Set1&n=4

Value

Returns a grid object with the alignment


PacificBiosciences/ccsviewr documentation built on May 7, 2019, 11:55 p.m.