| line |
count |
pod |
subroutine |
|
111
|
1 |
n/a |
BEGIN |
|
113
|
1 |
n/a |
BEGIN |
|
114
|
1 |
n/a |
BEGIN |
|
115
|
1 |
n/a |
BEGIN |
|
116
|
1 |
n/a |
BEGIN |
|
118
|
1 |
n/a |
BEGIN |
|
143
|
1 |
Yes |
new |
|
192
|
0 |
Yes |
set_verbose |
|
207
|
0 |
Yes |
get_filename |
|
234
|
1 |
Yes |
count_sequences_with_grep |
|
275
|
0 |
Yes |
get_path |
|
295
|
0 |
Yes |
get_contigs |
|
312
|
0 |
Yes |
get_class |
|
337
|
0 |
Yes |
get_quality_array |
|
362
|
0 |
Yes |
get_quality_scalar |
|
386
|
0 |
Yes |
freeze_hash |
|
421
|
0 |
Yes |
get_members |
|
447
|
0 |
Yes |
get_members_by_name |
|
479
|
0 |
Yes |
get_contig_number_by_name |
|
502
|
0 |
Yes |
get_sequence |
|
521
|
0 |
Yes |
set_final_sequence |
|
548
|
1 |
n/a |
_read_file |
|
693
|
1 |
Yes |
set_reverse_designator |
|
715
|
1 |
Yes |
set_forward_designator |
|
734
|
0 |
Yes |
set_designator_ignore_case |
|
764
|
0 |
Yes |
set_trim_points_singlets_and_singletons |
|
817
|
0 |
Yes |
set_trim_points_doublets |
|
860
|
0 |
Yes |
get_trimmed_sequence_by_name |
|
886
|
0 |
Yes |
set_dash_present_in_sequence_name |
|
917
|
1 |
Yes |
set_doublets |
|
986
|
1 |
Yes |
set_singlets |
|
1055
|
3 |
Yes |
get_singlets |
|
1091
|
0 |
Yes |
set_quality_by_name |
|
1117
|
0 |
Yes |
set_singlet_quality |
|
1163
|
0 |
Yes |
set_contig_quality |
|
1215
|
3 |
Yes |
get_multiplets |
|
1241
|
0 |
Yes |
get_all_members |
|
1281
|
2 |
Yes |
sum_lets |
|
1299
|
1 |
n/a |
BEGIN |
|
1338
|
0 |
Yes |
write_stats |
|
1365
|
3 |
Yes |
get_singletons |
|
1398
|
3 |
Yes |
get_pairs |
|
1423
|
0 |
Yes |
get_name |
|
1440
|
46 |
n/a |
_get_contig_name |
|
1496
|
3 |
Yes |
get_doublets |
|
1523
|
0 |
Yes |
dump_hash |
|
1543
|
1 |
n/a |
BEGIN |
|
1544
|
0 |
Yes |
dump_hash_compact |
|
1621
|
0 |
Yes |
get_phreds |
|
1659
|
0 |
Yes |
parse_phd |
|
1690
|
0 |
Yes |
reverse_and_complement |
|
1712
|
0 |
Yes |
reverse_recurse |
|
1743
|
0 |
Yes |
show_missing_sequence |