Orma (oligonucleotide retrieving for molecular applications) in matlab

The following Matlab project contains the source code and Matlab examples used for orma (oligonucleotide retrieving for molecular applications). ORMA (Oligonucleotide Retrieving for Molecular Applications) is a series of integrated scripts in Matlab, which performs an accurate search of all the positions able to specifically discriminate one species among homologous ones.

The source code and files included in this project are listed in the project files section, please make sure whether the listed source code meet your needs there.

Project Files: 

File NameSize
consensus_cyani_ARB_30_gaps_50.fas 26043
consensus_cyani_ARB_30_gaps_50_aligned.aln 48996
cyanobacteria_all_sequences_aligned.aln 2290218
probe_design_cyanobacteria_full_2.mat 3340880
Readme_ORMA_1.0.txt 1486
Ana+apha.aln 142248
Calothrix.aln 7933
Cylindrospermopsis.aln 8075
cylindrospermum_aligned.fasta 2958
Gloeothece.aln 13380
Halotolerans.aln 17970
Leptolyngbya.aln 14621
Lyngbya.aln 8023
Microcystis.aln 225825
Nodularia.aln 64613
Nostoc.aln 14056
phormidium_aligned.fasta 2390
Plankto+Osc.aln 29248
Prochl+Synech.aln 495189
Spirulina.aln 26892
Synechocystis.aln 56948
Trichodesmium.aln 15885
woronochinia_aligned.fasta 2999
Ana+apha_labels.txt 674
Calothrix_labels.txt 29
Cylindrospermopsis_labels.txt 30
Cylindrospermum_labels.txt 20
Gloeothece_labels.txt 61
Halotolerans_labels.txt 74
Leptolyngbya_labels.txt 102
Lyngbya_labels.txt 30
Microcystis_labels.txt 982
Nodularia_labels.txt 300
Nostoc_labels.txt 60
Phochl+Synechoc_labels.txt 948
Phormidium_labels.txt 20
Plankto+Osc_labels.txt 123
Spirulina_labels.txt 140
Synchocystis_labels.txt 104
Thrichodesmium_labels.txt 70
Woronichinia_labels.txt 46
license.txt 1569
all_perms.m 1123
alnread.m 1378
cellwrite.m 1673
consensus_revised.m 7198
diff_elem.m 805
discrim_positions_accurate.m 2514
discrim_positions_fast.m 1542
discr_pos_find_seqs_score.m 4572
filtering_seq_score.m 2315
filtering_tab.m 6754
filter_by_composition_input.m 1459
filter_by_composition_score.m 1264
filter_by_homopols.m 941
filter_by_len.m 538
filter_by_STR.m 1834
filter_by_temp_score.m 1227
find_multi_str.m 472
group_selection.m 3409
import_aln_separated_scores.m 6124
import_group_def.m 2756
melting_score.m 2283
MeTeBaSS.m 1156
non_equal_elem.m 697
ORMA.m 6085
plotting_stat_LDR_design.m 1610
positive_set_filter.m 2160
read_aligned_file.m 1275
read_fasta.m 1160
read_msf_multi.m 1298
retr_seq_LDR.m 9236
STD_search.m 687

SocialTags: 

IndustryTerm: