1d:T474,# Edit sequence ordered by reference genome positions comparing to another set order ```r edit_order(input.seq, invert = NULL, remove = NULL) ``` ## Arguments - `input.seq`: object of class mappoly.sequence with alternative order (not genomic order) - `invert`: vector of marker names to be inverted - `remove`: vector of marker names to be removed ## Returns object of class `mappoly.edit.order`: a list containing vector of marker names ordered according to editions (`edited_order`); vector of removed markers names (`removed`); vector of inverted markers names (`inverted`). ## Examples ```r dat <- filter_segregation(tetra.solcap, inter = FALSE) seq_dat <- make_seq_mappoly(dat) seq_chr <- make_seq_mappoly(seq_dat, arg = seq_dat$seq.mrk.names[which(seq_dat$chrom=="1")]) tpt <- est_pairwise_rf(seq_chr) seq.filt <- rf_snp_filter(tpt, probs = c(0.05, 0.95)) mat <- rf_list_to_matrix(tpt) mat2 <- make_mat_mappoly(mat, seq.filt) seq_test_mds <- mds_mappoly(mat2) seq_mds <- make_seq_mappoly(seq_test_mds) edit_seq <- edit_order(input.seq = seq_mds) ``` ## Author(s) Cristiane Taniguti, chtaniguti@tamu.edu1e:T49a,M7.49933 0.25C3.49635 0.25 0.25 3.49593 0.25 7.50024C0.25 10.703 2.32715 13.4206 5.2081 14.3797C5.57084 14.446 5.70302 14.2222 5.70302 14.0299C5.70302 13.8576 5.69679 13.4019 5.69323 12.797C3.67661 13.235 3.25112 11.825 3.25112 11.825C2.92132 10.9874 2.44599 10.7644 2.44599 10.7644C1.78773 10.3149 2.49584 10.3238 2.49584 10.3238C3.22353 10.375 3.60629 11.0711 3.60629 11.0711C4.25298 12.1788 5.30335 11.8588 5.71638 11.6732C5.78225 11.205 5.96962 10.8854 6.17658 10.7043C4.56675 10.5209 2.87415 9.89918 2.87415 7.12104C2.87415 6.32925 3.15677 5.68257 3.62053 5.17563C3.54576 4.99226 3.29697 4.25521 3.69174 3.25691C3.69174 3.25691 4.30015 3.06196 5.68522 3.99973C6.26337 3.83906 6.8838 3.75895 7.50022 3.75583C8.1162 3.75895 8.73619 3.83906 9.31523 3.99973C10.6994 3.06196 11.3069 3.25691 11.3069 3.25691C11.7026 4.25521 11.4538 4.99226 11.3795 5.17563C11.8441 5.68257 12.1245 6.32925 12.12

edit_order function