atlas-class: Class atlas

In genostats/Fantasio: Genetic Data Analyses in Presence of Inbreeding

Class atlas

Description

Class atlas This is the class used to create an object which will contains every dataframe and list created when creating submaps.

Slots

segments_list

the list of segments

submaps_list

a list of submaps

likelihood_summary

a dataframe with both likelihood0 and likelihood1 over the submaps

estimation_summary

a dataframe with both a and f estimation over the submaps

submap_summary

a dataframe with summary statitistics about the submaps

HBD_recap

a dataframe with for one individual and for one marker a mean computation of all the HBD probabilities computed, on every individuals.

FLOD_recap

a dataframe with for one individual and for one marker a mean computation of all the FLOD scores computed, on every individuals.

HBDsegments

a list of dataframe with the HBDsegments, on all individuals.

HFLOD

a dataframe with the value of HFLOD scores for every markers through all submaps.

bedmatrix

a bed.matrix object (refer to gaston package)

bySegments

a boolean indicating wheter the creation of summary statistics was made by segments (see documentation of Fantasio function)

unit

the unit of the markers (cM or Bp).

gap

the value of the gap used to pick marker when doing submaps by snps. (see function Fantasio for more infos)

logisticRegression

the results of logistic regression

genostats/Fantasio documentation built on Feb. 2, 2023, 5:28 p.m.