| blib/lib/Bio/GeneDesign.pm | |||
|---|---|---|---|
| Criterion | Covered | Total | % |
| subroutine | 53 | 84 | 63.1 |
| pod | 64 | 65 | 98.4 |
| 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 |
| 36 | 11 | n/a | BEGIN |
| 37 | 11 | n/a | BEGIN |
| 39 | 11 | n/a | BEGIN |
| 40 | 11 | n/a | BEGIN |
| 59 | 9 | Yes | new |
| 121 | 0 | Yes | codon_path |
| 133 | 0 | Yes | EMBOSS |
| 145 | 9 | Yes | BLAST |
| 157 | 0 | Yes | graph |
| 169 | 0 | Yes | vmatch |
| 185 | 4 | Yes | enzyme_set |
| 199 | 0 | Yes | enzyme_set_name |
| 214 | 0 | Yes | all_enzymes |
| 228 | 0 | Yes | organism |
| 248 | 1 | Yes | codontable |
| 268 | 1 | Yes | reversecodontable |
| 288 | 1 | Yes | rscutable |
| 328 | 4 | Yes | melt |
| 385 | 4 | Yes | complement |
| 429 | 3 | Yes | rcomplement |
| 459 | 0 | Yes | transcribe |
| 496 | 2 | Yes | count |
| 529 | 0 | Yes | GC_windows |
| 567 | 6 | Yes | regex_nt |
| 606 | 1 | Yes | regex_aa |
| 636 | 5 | Yes | sequence_is_ambiguous |
| 666 | 4 | Yes | ambiguous_translation |
| 705 | 1 | Yes | ambiguous_transcription |
| 741 | 2 | Yes | positions |
| 795 | 0 | Yes | parse_organisms |
| 833 | 7 | Yes | set_codontable |
| 898 | 7 | Yes | set_rscutable |
| 944 | 7 | Yes | set_organism |
| 992 | 3 | Yes | codon_count |
| 1031 | 1 | Yes | generate_RSCU_table |
| 1073 | 0 | Yes | generate_codon_report |
| 1128 | 0 | Yes | generate_RSCU_file |
| 1170 | 0 | Yes | list_enzyme_sets |
| 1211 | 3 | Yes | set_restriction_enzymes |
| 1285 | 0 | Yes | remove_from_enzyme_set |
| 1348 | 0 | Yes | add_to_enzyme_set |
| 1385 | 1 | Yes | restriction_status |
| 1420 | 2 | Yes | build_prefix_tree |
| 1500 | 2 | Yes | search_prefix_tree |
| 1526 | 3 | Yes | pattern_aligner |
| 1558 | 1 | Yes | pattern_adder |
| 1586 | 0 | Yes | codon_change_type |
| 1609 | 9 | Yes | translate |
| 1649 | 0 | Yes | reverse_translate_algorithms |
| 1658 | 20001 | Yes | reverse_translate |
| 1723 | 0 | Yes | codon_juggle_algorithms |
| 1732 | 20003 | Yes | codon_juggle |
| 1788 | 4 | Yes | subtract_sequence |
| 1861 | 0 | Yes | repeat_smash |
| 1908 | 0 | Yes | make_amplification_primers |
| 1929 | 0 | Yes | contains_homopolymer |
| 1947 | 0 | Yes | filter_homopolymers |
| 1967 | 0 | Yes | find_runs |
| 1987 | 0 | Yes | make_graph |
| 2031 | 0 | Yes | make_dotplot |
| 2071 | 1 | Yes | import_seqs |
| 2084 | 0 | No | import_seq_from_string |
| 2097 | 0 | Yes | export_formats |
| 2108 | 0 | Yes | export_seqs |
| 2133 | 30000 | Yes | random_dna |
| 2165 | 3 | Yes | replace_ambiguous_bases |
| 2209 | 0 | Yes | pad |
| 2226 | 0 | Yes | attitude |
| 2251 | 0 | Yes | endslash |
| 2265 | 40063 | n/a | _stripdown |
| 2292 | 40028 | n/a | _checkref |