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 |
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