| CCcolors | Collaborative Cross colors |
| plot_coef | Plot QTL effects along chromosome |
| plot_genes | Plot gene locations for a genomic interval |
| plot_genoprob | Plot genotype probabilities for one individual on one... |
| plot_genoprobcomp | Plot comparison of two sets of genotype probabilities |
| plot_onegeno | Plot one individual's genome-wide genotypes |
| plot_peaks | Plot QTL peak locations |
| plot_pxg | Plot phenotype vs genotype |
| plot_scan1 | Plot a genome scan |
| plot_snpasso | Plot SNP associations |
| qtl2plot-package | qtl2plot: Data Visualization for QTL Experiments |
| xpos_scan1 | Get x-axis position for genomic location |
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