Symbol | Variable in software | Default value | Description |
---|---|---|---|
Cvirus | cov_virus | 400 | Coverage during viral transduction. |
Ccells | cov_cells | 400 | Coverage during cell culture. |
CPCR | cov_pcr | 400 | Coverage for PCR amplification. |
L | lib_width | 7.5 | Library distribution width. |
Ï„ | dupl_time | 30 | Cell duplication time in hours. |
Ï•neg | freq_negfc | 0.1 | Fraction of gRNAs with negative fitness effect. |
Ï•pos | freq_posfc | 0.01 | Fraction of gRNAs with positive fitness effect. |
Ntot | n_sgrnas | 50,000 | Number of gRNAs in total. |
NgRNA | n_sgrnas_per_gene | 4 | Number of gRNAs per gene. |
Nlibpcr | n_repl_lib_pcr | 2 | Number of replicates for library sequencing. |
Nbio | n_repl_sel | 10 | Number of biological replicates. |
Nbiopcr | n_repl_pcr | 3 | Number of sequencing replicates per biological replicate. |
Nsplit | n_splittings | 7 | Number of cell splittings. |
Δt | - | 72 | Time between cell splittings in hours. |