create_sd_matrix {scsR} | R Documentation |
We observed that the standard deviation of the oligos that share the same seed do change relative to their average score. In principle we could plot this information on a graph (x-axis = average of the oligos that share the same seed, y-axes = standard deviation of the oligos). We do provide this utility method to condense this information in a matrix (that reports the quantiles of the standard deviation for every score interval).
create_sd_matrix(screen, seedColName="seed7", scoreColName="score")
screen |
data frame containing the results of the siRNA experiment. |
seedColName |
name of the column that contains the seeds sequences of the screen (character vector) |
scoreColName |
name of the column that contains the score of the screen (character vector) |
matrix that reports the quantiles of the standard deviation for every score interval.
Andrea Franceschini
data(uuk_screen) # to speed up the example we use only the first 100 rows uuk_screen_reduced = uuk_screen[1:100,] screen = add_seed(uuk_screen_reduced) sd_matrix = create_sd_matrix(screen)