plot_qq: QQ plot
In pachterlab/zika: Tools for investigating RNA-Seq

Description Usage Arguments Value

Create a Q-Q plot of the test statistics. The x-axis has the theoretical quantile you would expect from a standard normal distribution. The y-axis has the observed quantiles. In the Wald case, it is a ggplot2 version of what you would get from qqnorm and qqline.

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plot_qq(obj, test, test_type = "wt", which_model = "full",
  sig_level = 0.1, point_alpha = 0.2, sig_color = "red",
  highlight = NULL, highlight_color = "green", line_color = "blue")

`obj`	a `sleuth` object
`test`	a character string denoting which beta to use for highlighting the transcript
`test_type`	either 'wt' for wald test or 'lrt' for likelihood ratio test.
`which_model`	a character string denoting which model to use for the test
`sig_level`	the significance level for Fdr
`point_alpha`	the alpha for the points
`sig_color`	what color to make the 'significant' transcripts
`highlight`	a `data.frame` with one column, `target_id`. These points will be highlighted in the plot. if `NULL`, no points will be highlighted.
`highlight_color`	the color to highlight points.
`line_color`	what color to make the QQ line