Man pages for jendelman/MapRtools
Tools for genetic mapping
| EGQ | Expected Genotype Quality |
| genetic_map | Multi-point estimation of a genetic map |
| interpolate_cM | Interpolate genetic distances |
| inverse_map_fn | Inverse map function |
| LDbin | Create marker bins based on LD |
| LG | Make linkage groups based on clustering |
| LGtrim | Trim a linkage group based on genotype frequencies |
| LL | Log-likelihood for mapping populations |
| map_fn | Map functions |
| MLEL | Max Likelihood Estimation of Linkage |
| order_markers | Order markers by solving the TSP |
| plot_coverage | Plot marker coverage of the genome |
| plot_geno | Graphical genotyping |
| plot_genoprob | Plot genotype probabilities for one chromosome |
| plot_haplofreq | Plot and filter markers based on haplotype frequency vs... |
| plot_LD | Plot LD vs distance |
| plot_map | Plot data against position and curate based on trend |
| plot_square | Plot square (dis)similarity matrix |
| rabbit_diallel | Make RABBIT input files for diploid diallel population |
| rabbit_read | Parse output from RABBIT MagicReconstruct |
| S1_haplo | Phase S1 parent and reconstruct progeny in terms of parental... |
| S1_selection | Signatures of selection in S1 populations |
