Make a scatter plot of transcripts from two samples. to assess correlation
plot_scatter(obj, sample_x = obj$sample_to_covariates$sample[1],
sample_y = obj$sample_to_covariates$sample[2], use_filtered = TRUE,
units = "est_counts", offset = 1, point_alpha = 0.2, xy_line = TRUE,
xy_line_color = "red", trans = "log", xlim = NULL, ylim = NULL)a sleuth object
the string corresponding to the sample name in obj$sample_to_covariates
same as sample_x but for the y-axis
if TRUE, use filtered data. otherwise, use all data
either 'est_counts' ('scaled_reads_per_base' for gene_mode) or 'tpm'
a linear offset to help deal with zeroes if transforming the abundances
the alpha on the points
if TRUE, plot the xy_line
a string denoting the color for the xy line
a string pointing to a function to use for the transformation.
This function must exist in the global namespace. This means you should be
able to call eval('myfun') and get a function back.
a numeric vector of length two denoting the x limits
same as xlim but for the y-axis
a ggplot object for the scatterplot