Functions from onemap not to be directly called by the user.
acum(w)
avoid.reverse(input)
adjust.rf.ril(r,type,expand)
check.linkage(i, s, cl, geno, st, max.rf, LOD)
codif.data(geno.in,segr.type.in,cross = c("outcross"))
comb(x,y)
comb.ger(f)
compare.outcross(input.seq, n.best, tol, verbose)
Cindex(order,r)
diplo(w, seq.num, seq.phases)
est_rf_out(geno, mrk, seg_type, nind, verbose)
generate_all(input.seq, p, ws)
generate_one(input.seq, p, ws, no_reverse)
generate.overlapping.batches(input.seq, size = 50, overlap = 15, silent = FALSE)
generate_rand(input.seq, p, ws, n, pref)
get.bins(geno, exact)
get_twopt_info(twopt, small, big)
get_mat_rf_out(input.seq, LOD = FALSE, max.rf = 0.5, min.LOD = 0, useC = FALSE)
get_vec_rf_out(input.seq, LOD, max.rf, min.LOD, acum)
perm.pars(v)
perm.tot(v)
phases(input.seq, LOD=0, max.rf=0.50)
predict_time(batches, ws, timings)
rem.amb.ph(M,w,seq.num)
return.geno(segr.type, link.phases)
ser.ord(r,i)
try.seq.outcross(input.seq, mrk, tol, pos, verbose)
# S3 method for compare
print(x, …)
# S3 method for onemap
print(x, …)
# S3 method for onemap.bin
print(x, …)
# S3 method for order
print(x, …)
# S3 method for order
print(x, …)
# S3 method for outcross
print(x, …)
# S3 method for sequence
print(x, …)