| line |
true |
false |
branch |
|
193
|
22344 |
170373 |
exists $k{$_} && $k{$_} ? : |
|
203
|
27 |
2766 |
unless exists $data{$expt} |
|
204
|
11172 |
11172 |
exists $l{$_} && $l{$_} ? : |
|
206
|
2793 |
0 |
unless exists $data{$expt}{$key} |
|
213
|
11172 |
11172 |
if (exists $l{$_} and $l{$_}) { } |
|
220
|
400 |
2393 |
if ($data{$expt}{$key}{'Protein group IDs'} =~ /;/) { } |
|
256
|
3 |
2 |
if exists $$o{'cache'}{'replicated'} |
|
284
|
7 |
2 |
if exists $$o{'cache'}{'orthogonals'} |
|
290
|
18 |
144 |
if $c2 eq $c1 |
|
292
|
108 |
36 |
unless $p eq $q |
|
294
|
72 |
252 |
if $c3 eq $c1 or $c3 eq $c2 |
|
296
|
180 |
72 |
unless $x eq $z |
|
314
|
7 |
2 |
if exists $$o{'cache'}{'pairs'} |
|
319
|
90 |
72 |
unless $r1 lt $r2 |
|
403
|
2601 |
5778 |
$options{'nodup'} ? : |
|
404
|
0 |
8379 |
$options{'experiment'} ? : |
|
408
|
8379 |
449469 |
if (ref $value eq '') |
|
411
|
457848 |
0 |
$options{'split'} ? : |
|
413
|
21632 |
437416 |
unless $_ ne '' or $options{'emptiesok'} |
|
414
|
51727 |
385689 |
if ($options{'nodup'}) { } |
|
425
|
2601 |
5778 |
$options{'nodup'} ? : |
|
434
|
1 |
1 |
if exists $$o{'cache'}{'proteinCount'} |
|
446
|
1 |
1 |
unless exists $$o{'cache'}{'proteinGroupIds'} |
|
456
|
2 |
2 |
unless exists $$o{'cache'}{'proteinGroupIds'} |
|
471
|
6 |
11 |
if $$o{'logged'} |
|
481
|
29217 |
1507 |
$$ratios[$_] =~ /^\d+\.?\d*$/ ? : |
|
523
|
9063 |
220734 |
if (not exists $opts{'experiment'} or $experiment =~ /$opts{'experiment'}/) |
|
527
|
944201 |
0 |
if (not exists $opts{'proteinGroupId'} or $pgid =~ /$opts{'proteinGroupId'}/) |
|
529
|
466181 |
478020 |
if (not exists $opts{'leadingProteins'} or $$pgdata{'Leading Proteins'} =~ /$opts{'leadingProteins'}/) |
|
530
|
463434 |
2747 |
unless (exists $opts{'notLeadingProteins'} and $$pgdata{'Leading Proteins'} =~ /$opts{'notLeadingProteins'}/) |
|
584
|
3 |
2823 |
unless exists $$o{'cache'}{'deviations'} |
|
587
|
1 |
2825 |
if exists $$o{'cache'}{'deviations'}{$cachekey} |
|
595
|
2825 |
0 |
$n > 1 ? : |
|
597
|
2825 |
0 |
$n ? : |
|
599
|
2825 |
0 |
$n ? : |
|
600
|
2825 |
0 |
$n ? : |
|
601
|
2825 |
0 |
$n ? : |
|
615
|
0 |
2827 |
if (scalar @values < 1) |
|
628
|
2827 |
0 |
$n ? : |
|
630
|
2827 |
0 |
if ($n > 1) { } |
|
665
|
0 |
2825 |
if (scalar @values < 1) |
|
695
|
1723 |
3479 |
if ($opts{'experiment1'} gt $opts{'experiment2'}) |
|
698
|
2 |
5200 |
unless exists $$o{'cache'}{'ttests'} |
|
700
|
3800 |
1402 |
if exists $$o{'cache'}{'ttests'}{$cachekey} |
|
714
|
1402 |
0 |
$$d1{'n'} && $$d2{'n'} ? : |
|
723
|
1402 |
0 |
$$d1{'n'} && $$d2{'n'} ? : |
|
771
|
13280 |
685 |
if ($$p{'data'}{$replicate}{$pgid}{'Ratio H/L'}[$i] =~ /\d/) |
|
791
|
3940 |
4894 |
if ($n % 2) { } |
|
811
|
2598 |
20784 |
if ($rep =~ /^$opts{'experiment1'}/) |
|
814
|
2598 |
20784 |
if ($rep =~ /^$opts{'experiment2'}/) |
|
819
|
866 |
0 |
unless exists $opts{'minimum_observations'} |
|
820
|
866 |
0 |
unless exists $opts{'minimum_replicates'} |
|
826
|
1608 |
990 |
if scalar @values > $opts{'minimum_observations'} |
|
831
|
1596 |
1002 |
if scalar @values > $opts{'minimum_observations'} |
|
833
|
348 |
518 |
if $reps1 < $opts{'minimum_replicates'} or $reps2 < $opts{'minimum_replicates'} |
|
841
|
1308 |
3354 |
if $$tt{'ttest'}{'p'} > $p_max |
|
842
|
1335 |
3327 |
if $$tt{'ttest_mad'}{'p'} > $p_mad_max |
|
847
|
5 |
513 |
if $$tt{'ttest'}{'p'} > $p_max |
|
848
|
0 |
518 |
if $$tt{'ttest_mad'}{'p'} > $p_mad_max |
|
875
|
120 |
168 |
if ($$r1{'p_max'} < 0 or $$r2{'p_max'} < 0) { } |
|
|
54 |
114 |
elsif ($$r2{'p_max'} > $$r1{'p_max'}) { } |
|
881
|
120 |
168 |
if ($$r1{'p_mad_max'} < 0 or $$r2{'p_mad_max'} < 0) { } |
|
|
52 |
116 |
elsif ($$r2{'p_mad_max'} > $$r1{'p_mad_max'}) { } |
|
917
|
0 |
0 |
$_[1] > $_[2] ? : |
|
927
|
0 |
0 |
if $_[1] eq '-' and $_[2] eq '+' |
|
928
|
0 |
0 |
if $_[1] eq '+' and $_[2] eq '-' |