| get.effect.size | Effect size and odds ratio for SNP profiles |
| get.effect.size.coxPH | Effect size and odds ratio for SNP profiles |
| get.sig.thr | Given a set of maximum LOD scores, calculate the significance... |
| GRconvert | Convert a Large list of data.frames into a GRangesList |
| GRSD.assoc | Genome wide association mapping for binary phenotypes. |
| GRSDassoc.perms | Permutation analysis for HZE. |
| GRSDbinom | Association mapping on autosomal chromosomes with binary... |
| GRSDbinom.fast | Association mapping on autosomal chromosomes with binary... |
| GRSDbinom.permsfast | Association mapping on autosomal chromosomes with binary... |
| GRSDbinom.regressGENO | Association mapping on autosomal chromosomes with binary... |
| GRSDbinom.xchr | Association mapping on the X chromosome with binary variable... |
| GRSDbinom.xchr.fast | Association mapping on the X chromosome with binary variable... |
| GRSDbinom.xchr.permsfast | Association mapping on the X chromosome with binary variable... |
| GRSDcoxph | Association mapping with survival outcomes using the CoxPH... |
| GRSD.coxph | Genome wide association mapping using CoxPH |
| GRSD.coxph4perms | Association mapping with survival outcomes using the CoxPH... |
| GRSDcoxph.perms | Permutation analysis for CoxPH model in HZE. |
| GRSDcoxph.xchr | Association mapping with survival outcomes using the CoxPH... |
| GRSDcoxph.xchr4perms | Association mapping with survival outcomes using the CoxPH... |
| GRSDpoisson | Association mapping on autosomal chromosomes with binary... |
| GRSD.poisson | Genome wide association mapping with glm(family = poisson). |
| GRSDpoisson.xchr | Association mapping on the X chromosome with poisson dist. |
| HS.assoc.bootstrap | QTL Confidence Interval with Resample Model Averaging For... |
| HS.cox.bootstrap | QTL Confidence Interval with Resample Model Averaging for Cox... |
| loop.hs.qtl | Loop through to create a smaller file for heatmap input |
| manhattan_plot | Allow for multiple, superimposed QTL plotting in mice.... |
| maxLOD | Helper Function for QTL Support Intervals. |
| multiplot | Allows for multiple plots (generated by ggplot2) |
| plot.hs | Plot function (w/ binning to average markers and max LOD) |
| plot.hs.color.qtl | Genome wide association plots with separate colors param... |
| plot.hs.qtl | Convert function to average fixed regions and return LOD for... |
| Scanone.assoc.perms | Permutation analysis for continuous traits in HZE ion exposed... |
