| Methods | MAGeCK | RIGER [14] | RSA [15] | |
---|---|---|---|---|---|
sgRNA ranking | Ranking method | Negative binomial P-value | Signal-to-noise ratio | Fold change | Negative binomial P-value |
Statistical evaluation | Yes | No | No | Yes | |
Number of samples required in each category | 1, prefer more | At least 2 | 1 | 1 | |
Bias towards sgRNAs with smaller read countsa | No | No | Yes | No | |
Gene ranking | Ranking method | Robust rank aggregation P-value | Kolmogorov-Smirnov P-value | Iterative hyper-geometric P-value | Not applied to gene ranking |
Permutation | Yes | Yes | No | ||
FDRb | Low | Low | High | ||
Sensitivity in detecting negatively selected genesc | High | Low | High | ||
Robust against the number of sgRNAs/gened | Yes | No | Yes |