| blib/lib/Bio/GeneDesign.pm | |||
|---|---|---|---|
| Criterion | Covered | Total | % |
| subroutine | 50 | 76 | 65.7 |
| pod | 59 | 59 | 100.0 |
| line | count | pod | subroutine |
|---|---|---|---|
| 22 | 11 | n/a | BEGIN |
| 24 | 11 | n/a | BEGIN |
| 25 | 11 | n/a | BEGIN |
| 26 | 11 | n/a | BEGIN |
| 27 | 11 | n/a | BEGIN |
| 28 | 11 | n/a | BEGIN |
| 29 | 11 | n/a | BEGIN |
| 30 | 11 | n/a | BEGIN |
| 31 | 11 | n/a | BEGIN |
| 32 | 11 | n/a | BEGIN |
| 33 | 11 | n/a | BEGIN |
| 34 | 11 | n/a | BEGIN |
| 35 | 11 | n/a | BEGIN |
| 37 | 11 | n/a | BEGIN |
| 38 | 11 | n/a | BEGIN |
| 57 | 9 | Yes | new |
| 119 | 0 | Yes | EMBOSS |
| 131 | 9 | Yes | BLAST |
| 143 | 0 | Yes | graph |
| 155 | 0 | Yes | vmatch |
| 171 | 4 | Yes | enzyme_set |
| 185 | 0 | Yes | enzyme_set_name |
| 200 | 0 | Yes | all_enzymes |
| 214 | 0 | Yes | organism |
| 234 | 1 | Yes | codontable |
| 254 | 1 | Yes | reversecodontable |
| 274 | 1 | Yes | rscutable |
| 314 | 4 | Yes | melt |
| 371 | 4 | Yes | complement |
| 413 | 2 | Yes | count |
| 451 | 6 | Yes | regex_nt |
| 490 | 1 | Yes | regex_aa |
| 520 | 5 | Yes | sequence_is_ambiguous |
| 550 | 4 | Yes | ambiguous_translation |
| 589 | 1 | Yes | ambiguous_transcription |
| 625 | 2 | Yes | positions |
| 705 | 7 | Yes | set_codontable |
| 767 | 7 | Yes | set_rscutable |
| 813 | 7 | Yes | set_organism |
| 861 | 3 | Yes | codon_count |
| 900 | 1 | Yes | generate_RSCU_table |
| 942 | 0 | Yes | generate_codon_report |
| 997 | 0 | Yes | generate_RSCU_file |
| 1039 | 0 | Yes | list_enzyme_sets |
| 1080 | 3 | Yes | set_restriction_enzymes |
| 1149 | 0 | Yes | remove_from_enzyme_set |
| 1212 | 0 | Yes | add_to_enzyme_set |
| 1249 | 1 | Yes | restriction_status |
| 1284 | 2 | Yes | build_prefix_tree |
| 1364 | 2 | Yes | search_prefix_tree |
| 1390 | 3 | Yes | pattern_aligner |
| 1422 | 1 | Yes | pattern_adder |
| 1450 | 0 | Yes | codon_change_type |
| 1473 | 9 | Yes | translate |
| 1513 | 20001 | Yes | reverse_translate |
| 1568 | 20003 | Yes | codon_juggle |
| 1625 | 3 | Yes | subtract_sequence |
| 1698 | 0 | Yes | repeat_smash |
| 1729 | 0 | Yes | make_amplification_primers |
| 1750 | 0 | Yes | contains_homopolymer |
| 1768 | 0 | Yes | filter_homopolymers |
| 1788 | 0 | Yes | search_vmatch |
| 1836 | 0 | Yes | filter_blast |
| 1891 | 0 | Yes | carve_building_blocks |
| 1967 | 0 | Yes | chop_oligos |
| 2036 | 0 | Yes | make_graph |
| 2080 | 0 | Yes | make_dotplot |
| 2120 | 1 | Yes | import_seqs |
| 2141 | 0 | Yes | export_seqs |
| 2196 | 30000 | Yes | random_dna |
| 2228 | 3 | Yes | replace_ambiguous_bases |
| 2272 | 0 | Yes | pad |
| 2289 | 0 | Yes | attitude |
| 2314 | 0 | Yes | endslash |
| 2328 | 40059 | n/a | _stripdown |
| 2355 | 40027 | n/a | _checkref |