This is the mle sub command from MAGeCK. Similar to MAGeCk Test, this subcommand outputs a gene ranking, but uses maximum-likelihood estimation for gene essentiality scores instead of RRA. This subcommand takes the count summary file (*.count.txt) output from MAGeCk Count.
sgRNA | Gene | HL60.initial | KBM7.initial | HL60.final | KBM7.final |
---|---|---|---|---|---|
A1CF_m52595977 | A1CF | 213 | 274 | 883 | 175 |
A1CF_m52596017 | A1CF | 294 | 412 | 1554 | 1891 |
A1CF_m52596056 | A1CF | 421 | 368 | 566 | 759 |
A1CF_m52603842 | A1CF | 274 | 243 | 314 | 855 |
A1CF_m52603847 | A1CF | 0 | 50 | 145 | 266 |
Number of Genes * x for x Rounds of Permutation
. MAGeCK defaults to 2 rounds but suggests 10 (which may take a longer time).