Man pages for genostats/Fantasio
Genetic Data Analyses in Presence of Inbreeding
| atlas-class | Class atlas |
| cytobands | Position of cytobands on the human chromosomes |
| dim-fMatrix-method | The generic dim method for fMatrix class |
| Fantasio | Wrapper for the package Fantasio |
| festim | Computation of a and f |
| fMatrix-class | Class fMatrix. |
| ggQQPlot | Fonction to plot QQplot with confidence interval Marie-Sophie... |
| glmHBD | Logistic regression on HBD probability or FLOD score |
| glmHBDPlot | QQ-Plot & Manhattan Plots for glm on HBD prob or FLOD |
| HBDPlotChr | plot of HBD segment |
| HBDPlotId | plot of HBD segment |
| HBDSegments | Find HBDsegments |
| HFLODManhattanPlot | Creation of an manhattan plot of the HFLOD |
| HFLODPlotChr | Plot of the HFLOD |
| HostspotsMatrix-class | Class HostspotsMatrix |
| HostspotsSegments-class | Class HostspotsSegments |
| hotspot | Position of hotspots throughout the human genome |
| initialize-atlas-method | Constructor method of atlas. |
| initialize-fMatrix-method | Constructor method of fMatrix |
| initialize-HostspotsMatrix-method | Constructor method of HostspotsMatrix. |
| initialize-snpsMatrix-method | Constructor method of snpsMatrix. |
| initialize-snpsSegments-method | Constructor method of snpsSegments. |
| makeAtlasByDistance | Creation of submaps based on distance between markers |
| makeAtlasByHotspots | Creation of submaps based on hotposts in the genome |
| makeSubmapByDistance | Creation of a submaps |
| makeSubmapByHotspots | Creation of a submaps |
| markerRepresentation | Markers selected through the submaps |
| markerSummary | Number of marker selected in a submap |
| phenoConverter | Fonction to convert phenotype when the phenotype coded with... |
| plotROHSegmentsChr | Creation of plot using ROH file |
| plotROHSegmentsId | Creation of plot using ROH file |
| recap | HBD/FLOD recap |
| segmentsListByDistance | Creation of a list of segments |
| segmentsListByHotspots | Creation of a list of segments |
| segmentsListSummary | Summary of marker picked |
| setAlleleFrequencies | This function assign allele frequencies from a reference data... |
| setFLOD | Computation of FLOD scores |
| setHBDProb | Computation of HBD probabilities |
| setHBDProbAndFLOD | Computation of HBD probabilities and FLOD scores by segments |
| setHBDProbAndFLODBySnps | Computation of HBD probabilities and FLOD scores by snps |
| setHFLOD | Computation of HFLOD scores |
| setStatus | Set status in the bed.matrix |
| setSummary | Creation summary statistic files |
| show-atlas-method | Show method of atlas. |
| show-fMatrix-method | show method of fMatrix class |
| show-HostspotsMatrix-method | Show method of HostspotsMatrix. |
| show-HostspotsSegments-method | Show method of HostspotsSegments. |
| show-snpsMatrix-method | Show method of snpsMatrix. |
| show-snpsSegments-method | Show method of snpsSegments. |
| snpsMatrix-class | Class snpsMatrix |
| snpsSegments-class | Class snpsSegments. |
| submapEstim | Summury of estimation through the submaps |
| submapLikelihood | Estimation of likelihood0 and likelihood2 |
| submapSummary | Submap summary |
