Subroutine Coverage
| lib/Bio/BPWrapper/SeqManipulations.pm |
|
| Criterion |
Covered |
Total |
% |
| subroutine |
43 |
79 |
54.4
|
| pod |
18 |
54 |
33.3
|
| line |
count |
pod |
subroutine |
|
18
|
19 |
n/a |
BEGIN |
|
19
|
19 |
n/a |
BEGIN |
|
20
|
19 |
n/a |
BEGIN |
|
21
|
19 |
n/a |
BEGIN |
|
22
|
19 |
n/a |
BEGIN |
|
23
|
19 |
n/a |
BEGIN |
|
24
|
19 |
n/a |
BEGIN |
|
25
|
19 |
n/a |
BEGIN |
|
26
|
19 |
n/a |
BEGIN |
|
27
|
19 |
n/a |
BEGIN |
|
28
|
19 |
n/a |
BEGIN |
|
29
|
19 |
n/a |
BEGIN |
|
30
|
19 |
n/a |
BEGIN |
|
31
|
19 |
n/a |
BEGIN |
|
34
|
19 |
n/a |
BEGIN |
|
36
|
19 |
n/a |
BEGIN |
|
58
|
19 |
n/a |
BEGIN |
|
141
|
19 |
Yes |
initialize |
|
172
|
18 |
No |
can_handle |
|
177
|
18 |
No |
handle_opt |
|
190
|
1 |
Yes |
write_out |
|
209
|
0 |
No |
codon_sim |
|
252
|
0 |
No |
fisher_yates_shuffle |
|
262
|
0 |
No |
synon_codons |
|
292
|
0 |
No |
count_gaps_dna |
|
309
|
0 |
No |
count_gaps_aa |
|
326
|
0 |
n/a |
_count_gap |
|
346
|
0 |
No |
rename_id |
|
377
|
0 |
No |
update_longest_orf |
|
433
|
0 |
n/a |
_trim_end_to_frame |
|
442
|
0 |
n/a |
_get_longest |
|
477
|
0 |
No |
iso_electric_point |
|
489
|
0 |
No |
print_weight |
|
497
|
0 |
No |
codon_info |
|
582
|
0 |
n/a |
__cd_entropy |
|
603
|
0 |
No |
sort_by |
|
642
|
0 |
No |
split_cdhit |
|
684
|
1 |
No |
print_composition |
|
700
|
4 |
No |
filter_seqs |
|
744
|
0 |
Yes |
retrieve_seqs |
|
756
|
1 |
Yes |
remove_gaps |
|
773
|
1 |
Yes |
print_lengths |
|
785
|
1 |
Yes |
print_seq_count |
|
798
|
1 |
Yes |
make_revcom |
|
813
|
1 |
Yes |
print_subseq |
|
824
|
7 |
n/a |
_internal_stop_or_x |
|
860
|
1 |
Yes |
reading_frame_ops |
|
970
|
1 |
Yes |
anonymize |
|
1002
|
1 |
Yes |
shred_seq |
|
1022
|
0 |
No |
codon_table |
|
1025
|
19 |
n/a |
BEGIN |
|
1039
|
0 |
Yes |
count_codons |
|
1060
|
1 |
Yes |
print_gb_gene_feats |
|
1094
|
0 |
Yes |
count_leading_gaps |
|
1116
|
1 |
Yes |
hydroB |
|
1133
|
1 |
Yes |
linearize |
|
1147
|
1 |
Yes |
reloop_at |
|
1160
|
1 |
Yes |
remove_stop |
|
1177
|
0 |
n/a |
_in_list |
|
1186
|
4 |
No |
parse_orders |
|
1201
|
1 |
n/a |
_make_sed_file |
|
1224
|
0 |
No |
find_by_file |
|
1230
|
0 |
No |
pick_by_file |
|
1239
|
0 |
No |
del_by_file |
|
1248
|
28 |
No |
find_by_order |
|
1253
|
21 |
No |
pick_by_order |
|
1258
|
7 |
No |
del_by_order |
|
1264
|
0 |
No |
find_by_id |
|
1270
|
0 |
No |
pick_by_id |
|
1280
|
0 |
No |
del_by_id |
|
1289
|
0 |
No |
find_by_re |
|
1296
|
0 |
No |
pick_by_re |
|
1301
|
0 |
No |
del_by_re |
|
1309
|
0 |
No |
find_by_ambig |
|
1318
|
0 |
No |
pick_by_ambig |
|
1323
|
0 |
No |
del_by_ambig |
|
1331
|
0 |
No |
find_by_length |
|
1336
|
0 |
No |
pick_by_length |
|
1341
|
0 |
No |
del_by_length |