add_seed


    Dataframe containing the results of the siRNA screen.



    character vector with the name of the column that contains the siRNA sequences (the sequences have to be provided in the guide/antisense orientation).


seqColName


    length of the seed in nucleotides (by default 7 bases)  (integer)


seedLength


    position in the siRNA sequence where the seed starts (by default position 2) (integer))


startPosition


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.


Corrects genome-wide siRNA screens for seed mediated off-target effect. Suitable functions to identify the effective seeds/miRNAs and to visualize their effect are also provided in the package.

Andrea Franceschini  Roger Meier rogermeierlmscethzch Christian von Mering meringimlsuzhch

scsR

SiRNA correction for seed mediated off-target effect

add_seed function

Dataframe containing the results of the siRNA screen.

character vector with the name of the column that contains the siRNA sequences (the sequences have to be provided in the guide/antisense orientation).

length of the seed in nucleotides (by default 7 bases)  (integer)

position in the siRNA sequence where the seed starts (by default position 2) (integer))

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: add_seed

Description

Usage

Arguments

Value

Examples