marker.type {onemap} | R Documentation |
Informs the type of segregation of all markers from an object of class
sequence
. For outcross populations it uses the notation by
Wu et al., 2002. For backcrosses, F_2 and RILs,
it uses the traditional notation from MAPMAKER i.e. AA, AB, BB, not AA and not BB.
marker.type(input.seq)
input.seq |
an object of class |
The segregation types are (Wu et al., 2002):
Type | Cross | Segregation |
A.1 | ab x cd | 1:1:1:1 |
A.2 | ab x ac | 1:1:1:1 |
A.3 | ab x co | 1:1:1:1 |
A.4 | ao x bo | 1:1:1:1 |
B1.5 | ab x ao | 1:2:1 |
B2.6 | ao x ab | 1:2:1 |
B3.7 | ab x ab | 1:2:1 |
C8 | ao x ao | 3:1 |
D1.9 | ab x cc | 1:1 |
D1.10 | ab x aa | 1:1 |
D1.11 | ab x oo | 1:1 |
D1.12 | bo x aa | 1:1 |
D1.13 | ao x oo | 1:1 |
D2.14 | cc x ab | 1:1 |
D2.15 | aa x ab | 1:1 |
D2.16 | oo x ab | 1:1 |
D2.17 | aa x bo | 1:1 |
D2.18 | oo x ao | 1:1 |
Nothing is returned. Segregation types of all markers in the sequence are displayed on the screen.
Gabriel R A Margarido, gramarga@gmail.com
Wu, R., Ma, C.-X., Painter, I. and Zeng, Z.-B. (2002) Simultaneous maximum likelihood estimation of linkage and linkage phases in outcrossing species. Theoretical Population Biology 61: 349-363.
data(example.out) twopts <- rf.2pts(example.out) markers.ex <- make.seq(twopts,c(3,6,8,12,16,25)) marker.type(markers.ex) # segregation type for some markers data(fake.f2.onemap) twopts <- rf.2pts(fake.f2.onemap) all.mrk<-make.seq(twopts, "all") lgs<-group(all.mrk) lg1<-make.seq(lgs,1) marker.type(lg1) # segregation type for linkage group 1