add_seed {scsR} | R Documentation |
This method takes in input a dataframe containing the results of an siRNA screen. This screen must contain the siRNA sequences in a dedicated column (the sequences have to be provided in the guide/antisense orientation). Then it adds a column with the seed of the siRNA sequences.
add_seed(df, seqColName="siRNA_seq", seedLength=7, startPosition=2)
df |
Dataframe containing the results of the siRNA screen. |
seqColName |
character vector with the name of the column that contains the siRNA sequences (the sequences have to be provided in the guide/antisense orientation). |
seedLength |
length of the seed in nucleotides (by default 7 bases) (integer) |
startPosition |
position in the siRNA sequence where the seed starts (by default position 2) (integer)) |
screen data frame with the seed column added.
Andrea Franceschini
data(uuk_screen) seed_uuk_screen = add_seed(uuk_screen[1:100,])