| bedplot | Creation of BED and BedGraph custom tracks | 
| genomeplot | Creation of Genome Graph files | 
| lods1 | LOD score table for chromosome 1 | 
| lods2 | LOD score table for chromosome 2 | 
| nplplot | Plotting statistics along a chromosome | 
| nplplot.multi | Plotting linkage or association statistics for multiple results files | 
| nplplot.old | LOD score plotting (old version of nplplot) | 
| prepareplot | Prepare input data files for bedplot and genomeplot |