Mercurial > repos > dereeper > sniploid
comparison DrawMapOfOccurences.pl @ 0:58111b3965b2 draft default tip
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author | dereeper |
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date | Thu, 01 Nov 2012 09:35:05 -0400 |
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-1:000000000000 | 0:58111b3965b2 |
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1 #!/usr/bin/perl | |
2 | |
3 use strict; | |
4 use Switch; | |
5 use Getopt::Long; | |
6 use lib "."; | |
7 | |
8 my $usage = qq~Usage:$0 <args> | |
9 where <args> are: | |
10 -c, --count <SNP count SNiPloid output> | |
11 -a, --annotation <annotation file in GFF3> | |
12 -o, --output_png <output PNG file> | |
13 -s, --scale <scale. Default:100000> | |
14 -t, --type_analysis <type of analysis: polyploid_diploid or polyploid_polyploid. Default:polyploid_diploid> | |
15 -m, --max_nb_chrom <maximum number of chromomsome to display. Default:20> | |
16 -n, --nb_min_snp <minimal number of SNP to calculate ratio. Default:10> | |
17 -d, --display_cat <display ratio for each category instead of intra-polyploid and inter-diploid (yes/no). Default:no> | |
18 ~; | |
19 $usage .= "\n"; | |
20 | |
21 my ($snp_count,$annotation,$output_png,$global_scale,$max_nb_chrom,$type_analysis); | |
22 | |
23 my $global_scale = 10000; | |
24 my $max_nb_chrom = 20; | |
25 my $nb_min_snp = 10; | |
26 my $display_cat = "no"; | |
27 | |
28 | |
29 GetOptions( | |
30 "count=s" => \$snp_count, | |
31 "annotation=s" => \$annotation, | |
32 "output_png=s" => \$output_png, | |
33 "scale=s" => \$global_scale, | |
34 "max_nb_chrom=s" => \$max_nb_chrom, | |
35 "type_analysis=s" => \$type_analysis, | |
36 "nb_min_snp=s" => \$nb_min_snp, | |
37 "display_cat=s" => \$display_cat | |
38 ); | |
39 | |
40 | |
41 die $usage | |
42 if ( !$snp_count || !$annotation || !$output_png || !$type_analysis); | |
43 | |
44 my %proportions_categories; | |
45 my %ratios; | |
46 my %ratios_poly_diploid; | |
47 my %nb_snps; | |
48 open(my $COUNT,$snp_count); | |
49 <$COUNT>; | |
50 while(<$COUNT>) | |
51 { | |
52 my $line =$_; | |
53 chomp($line); | |
54 my @infos = split(/\t/,$line); | |
55 | |
56 | |
57 if ($type_analysis eq "polyploid_diploid") | |
58 { | |
59 my $gene = $infos[0]; | |
60 my $nb_snp = $infos[2]; | |
61 my $nb_1 = $infos[3]; | |
62 my $nb_2 = $infos[4]; | |
63 my $nb_3or4 = $infos[5]; | |
64 my $nb_3 = $infos[6]; | |
65 my $nb_4 = $infos[7]; | |
66 my $nb_5 = $infos[8]; | |
67 my $nb_other = $infos[9]; | |
68 my $nb_heterozygot_diploid = $infos[10]; | |
69 my $nb_snp_diploid = $infos[11]; | |
70 my $nb_snp_polyploid = $infos[12]; | |
71 | |
72 $nb_snps{$gene} = $nb_snp; | |
73 my $sum = $nb_1 + $nb_2 + $nb_3or4 + $nb_5 + $nb_3 + $nb_4 + $nb_other + $nb_heterozygot_diploid; | |
74 | |
75 if ($nb_snp >= $nb_min_snp) | |
76 { | |
77 if ($nb_1) | |
78 { | |
79 $proportions_categories{$gene}{"1"} = $nb_1/$nb_snp; | |
80 } | |
81 if ($nb_2) | |
82 { | |
83 $proportions_categories{$gene}{"2"} = $nb_2/$nb_snp; | |
84 } | |
85 if ($nb_5) | |
86 { | |
87 $proportions_categories{$gene}{"5"} = $nb_5/$nb_snp; | |
88 } | |
89 if ($nb_3or4) | |
90 { | |
91 $proportions_categories{$gene}{"3or4"} = $nb_3or4/$nb_snp; | |
92 } | |
93 } | |
94 | |
95 my $ratio_g1 = $infos[13]; | |
96 my $ratio_g2 = $infos[14]; | |
97 | |
98 if ($ratio_g1) | |
99 { | |
100 $ratios{$gene} = $ratio_g1; | |
101 } | |
102 } | |
103 | |
104 if ($type_analysis eq "polyploid_polyploid") | |
105 { | |
106 my $gene = $infos[0]; | |
107 my $nb_snp = $infos[2]; | |
108 my $nb_equal = $infos[3] + $infos[4]; | |
109 my $nb_diff = $infos[7]; | |
110 $nb_snps{$gene} = $nb_snp; | |
111 if ($nb_snp >= $nb_min_snp) | |
112 { | |
113 if ($nb_equal) | |
114 { | |
115 $proportions_categories{$gene}{"equal"} = $nb_equal/$nb_snp; | |
116 } | |
117 if ($nb_diff) | |
118 { | |
119 $proportions_categories{$gene}{"difference"} = $nb_diff/$nb_snp; | |
120 } | |
121 } | |
122 } | |
123 | |
124 } | |
125 close($COUNT); | |
126 | |
127 | |
128 | |
129 | |
130 my $max_pos = 0; | |
131 my %chrom_sizes; | |
132 my $chrom_particule; | |
133 my %genes; | |
134 my %gene_positions; | |
135 | |
136 open(my $ANNOT,$annotation); | |
137 while(<$ANNOT>) | |
138 { | |
139 my $line =$_; | |
140 chomp($line); | |
141 if (!/^#/ && /gene/) | |
142 { | |
143 my @infos = split(/\t/,$line); | |
144 my $chrom = $infos[0]; | |
145 if ($chrom =~/^(\w+_)(\d+)$/) | |
146 { | |
147 $chrom_particule = $1; | |
148 $chrom = $2; | |
149 } | |
150 | |
151 my $attributes = $infos[8]; | |
152 my $gene_name; | |
153 if ($attributes =~/ID=([^;]+);/) | |
154 { | |
155 $gene_name = $1; | |
156 } | |
157 if ($gene_name =~/(.*)_G1/) | |
158 { | |
159 $gene_name = $1; | |
160 } | |
161 else | |
162 { | |
163 next; | |
164 } | |
165 if (not defined $nb_snps{$gene_name}) | |
166 { | |
167 next; | |
168 } | |
169 | |
170 my $start = $infos[3]; | |
171 my $end = $infos[4]; | |
172 my $pos = sprintf("%.0f", ($start + (($end - $start) / 2))); | |
173 | |
174 $end = $end / $global_scale; | |
175 if ($chrom_sizes{$chrom}) | |
176 { | |
177 if ($end > $chrom_sizes{$chrom}) | |
178 { | |
179 $chrom_sizes{$chrom} = $end; | |
180 if ($end > $max_pos) | |
181 { | |
182 $max_pos = $end; | |
183 } | |
184 } | |
185 } | |
186 else | |
187 { | |
188 $chrom_sizes{$chrom} = $end; | |
189 if ($end > $max_pos) | |
190 { | |
191 $max_pos = $end; | |
192 } | |
193 } | |
194 $genes{$gene_name} = "$chrom:$pos"; | |
195 $gene_positions{$chrom}{$pos}= $gene_name; | |
196 } | |
197 } | |
198 close($ANNOT); | |
199 | |
200 | |
201 | |
202 use GD; | |
203 use GD::Simple; | |
204 use GD::Image; | |
205 | |
206 | |
207 | |
208 | |
209 #################### | |
210 # drawing | |
211 #################### | |
212 | |
213 my $scale = 800 / $max_pos; | |
214 | |
215 my $margin_left = 80; | |
216 my $margin_right = 50; | |
217 my $margin_top = 50; | |
218 my $margin_legend = 100; | |
219 my $margin_bottom = 10; | |
220 my $margin_between_chromosomes = 25; | |
221 my $margin_between_section = 50; | |
222 my $chrom_width = 10; | |
223 my $gene_width = 1; | |
224 | |
225 my $nb_group = 1; | |
226 | |
227 my $width_of_picture = scalar keys(%gene_positions); | |
228 if (scalar keys(%gene_positions) > $max_nb_chrom) | |
229 { | |
230 $width_of_picture = $max_nb_chrom; | |
231 } | |
232 | |
233 my $diagram_img = GD::Simple->new(($margin_left + $margin_right + ($max_pos*$scale)), | |
234 ($margin_top + ((($chrom_width * $nb_group) + ($margin_between_chromosomes * ($nb_group-1))) * $width_of_picture) + ($margin_between_section * $width_of_picture) + $margin_bottom + $margin_legend) | |
235 ); | |
236 | |
237 my $yellow = $diagram_img->colorAllocate(247,254,46); | |
238 my $orange_light = $diagram_img->colorAllocate(250,204,46); | |
239 my $red_light = $diagram_img->colorAllocate(254,100,46); | |
240 my $red = $diagram_img->colorAllocate(254,46,46); | |
241 my $orange = $diagram_img->colorAllocate(254,154,46); | |
242 | |
243 | |
244 # draw chromosomes | |
245 my $num_chrom = 0; | |
246 my @sorted_chrom = sort {$a <=> $b} keys(%gene_positions); | |
247 | |
248 my $nombre_genes = 0; | |
249 my $y_end; | |
250 foreach my $chrom(@sorted_chrom) | |
251 { | |
252 if (!$chrom) | |
253 { | |
254 next; | |
255 } | |
256 | |
257 if ($num_chrom > ($max_nb_chrom - 1)) | |
258 { | |
259 last; | |
260 } | |
261 my $ref_hash = $gene_positions{$chrom}; | |
262 my %hash = %$ref_hash; | |
263 | |
264 my $section_size = $chrom_width + (($margin_between_chromosomes + $chrom_width) * ($nb_group - 1)); | |
265 | |
266 # draw chromosome (X number of groups) | |
267 | |
268 $diagram_img->fgcolor('black'); | |
269 $diagram_img->bgcolor('white'); | |
270 $diagram_img->setThickness(1); | |
271 my $chrom_chain = $chrom_particule . $chrom; | |
272 | |
273 $diagram_img->rectangle( $margin_left, | |
274 $margin_top + (($section_size + $margin_between_section) * $num_chrom), | |
275 $margin_left + ($chrom_sizes{$chrom}*$scale), | |
276 $margin_top + $chrom_width + (($section_size + $margin_between_section) * $num_chrom) | |
277 ); | |
278 | |
279 $diagram_img->fgcolor('black'); | |
280 $diagram_img->moveTo(5,$margin_top + $chrom_width + (($section_size + $margin_between_section) * $num_chrom) - 1); | |
281 $y_end = $margin_top + $chrom_width + (($section_size + $margin_between_section) * ($num_chrom+1)) - 1; | |
282 $diagram_img->fontsize(12); | |
283 $diagram_img->font('Times'); | |
284 $diagram_img->string($chrom_particule . $chrom); | |
285 | |
286 | |
287 my $previous_x_5; | |
288 my $previous_x_1; | |
289 my $previous_x_2; | |
290 my $previous_x_3or4; | |
291 my $previous_y_5; | |
292 my $previous_y_1; | |
293 my $previous_y_2; | |
294 my $previous_y_3or4; | |
295 | |
296 my $previous_x_equal; | |
297 my $previous_x_diff; | |
298 my $previous_y_equal; | |
299 my $previous_y_diff; | |
300 | |
301 my $previous_x_snp_diplo; | |
302 my $previous_x_snp_poly; | |
303 my $previous_y_snp_diplo; | |
304 my $previous_y_snp_poly; | |
305 | |
306 my $previous_x_ratio_diplo_poly; | |
307 my $previous_y_ratio_diplo_poly; | |
308 | |
309 # draw genes | |
310 foreach my $pos(sort{$a <=> $b}keys(%hash)) | |
311 { | |
312 my $gene = $gene_positions{$chrom}{$pos}; | |
313 if (not defined $nb_snps{$gene} or $nb_snps{$gene} < $nb_min_snp) | |
314 { | |
315 next; | |
316 } | |
317 | |
318 if ($type_analysis eq "polyploid_diploid") | |
319 { | |
320 ##################################################### | |
321 # draw ratio (subgenomic contribution) | |
322 ##################################################### | |
323 my $color = "gray"; | |
324 if ($ratios{$gene}) | |
325 { | |
326 my $ratio_g1 = $ratios{$gene}; | |
327 if ($ratio_g1 <= 30) | |
328 { | |
329 $color = $red; | |
330 } | |
331 elsif ($ratio_g1 > 30 && $ratio_g1 <= 40) | |
332 { | |
333 $color = $red_light; | |
334 } | |
335 elsif ($ratio_g1 > 40 && $ratio_g1 <= 60) | |
336 { | |
337 $color = $orange; | |
338 } | |
339 elsif ($ratio_g1 > 60 && $ratio_g1 <= 70) | |
340 { | |
341 $color = $orange_light; | |
342 } | |
343 elsif ($ratio_g1 > 70) | |
344 { | |
345 $color = $yellow; | |
346 } | |
347 } | |
348 | |
349 $pos = $pos / $global_scale; | |
350 | |
351 $diagram_img->fgcolor($color); | |
352 $diagram_img->bgcolor($color); | |
353 $diagram_img->rectangle( $margin_left + ($pos*$scale) - ($gene_width / 2), | |
354 $margin_top + (($section_size + $margin_between_section) * $num_chrom) + 1, | |
355 $margin_left + ($pos*$scale) + ($gene_width / 2), | |
356 $margin_top + $chrom_width + (($section_size + $margin_between_section) * $num_chrom) - 1 | |
357 ); | |
358 | |
359 | |
360 | |
361 ##################################################### | |
362 # draw SNP categories | |
363 ##################################################### | |
364 | |
365 my $proportion_5 = $proportions_categories{$gene}{"5"}; | |
366 my $proportion_1 = $proportions_categories{$gene}{"1"}; | |
367 my $proportion_2 = $proportions_categories{$gene}{"2"}; | |
368 my $proportion_3or4 = $proportions_categories{$gene}{"3or4"}; | |
369 my $ratio_poly_diplo = $ratios_poly_diploid{$gene}; | |
370 | |
371 my $draw = 0; | |
372 if (defined $previous_x_5) | |
373 { | |
374 $draw = 1; | |
375 } | |
376 | |
377 | |
378 ####################### | |
379 # SNP category 5 | |
380 ####################### | |
381 if ($draw) | |
382 { | |
383 $diagram_img->moveTo($previous_x_5,$previous_y_5); | |
384 } | |
385 $previous_x_5 = $margin_left + ($pos*$scale) - 1; | |
386 $diagram_img->setThickness(2); | |
387 $diagram_img->fgcolor("red"); | |
388 $diagram_img->bgcolor("red"); | |
389 $previous_y_5 = $margin_top + (($section_size + $margin_between_section) * $num_chrom) + 1 - ($proportion_5 * 20) - 7; | |
390 if ($draw) | |
391 { | |
392 $diagram_img->lineTo($previous_x_5,$previous_y_5); | |
393 } | |
394 | |
395 if ($display_cat eq "yes") | |
396 { | |
397 ####################### | |
398 # SNP category 1 | |
399 ####################### | |
400 if ($draw) | |
401 { | |
402 $diagram_img->moveTo($previous_x_1,$previous_y_1); | |
403 } | |
404 $previous_x_1 = $margin_left + ($pos*$scale) - 1; | |
405 $diagram_img->fgcolor("orange"); | |
406 $diagram_img->bgcolor("orange"); | |
407 $previous_y_1 = $margin_top + (($section_size + $margin_between_section) * $num_chrom) + 1 - ($proportion_1 * 20) - 7; | |
408 if ($draw) | |
409 { | |
410 $diagram_img->lineTo($previous_x_1,$previous_y_1); | |
411 } | |
412 | |
413 | |
414 ####################### | |
415 # SNP category 2 | |
416 ####################### | |
417 if ($draw) | |
418 { | |
419 $diagram_img->moveTo($previous_x_2,$previous_y_2); | |
420 } | |
421 $previous_x_2 = $margin_left + ($pos*$scale) - 1; | |
422 $diagram_img->fgcolor("purple"); | |
423 $diagram_img->bgcolor("purple"); | |
424 $previous_y_2 = $margin_top + (($section_size + $margin_between_section) * $num_chrom) + 1 - ($proportion_2 * 20) - 7; | |
425 if ($draw) | |
426 { | |
427 $diagram_img->lineTo($previous_x_2,$previous_y_2); | |
428 } | |
429 | |
430 | |
431 ####################### | |
432 # SNP category 3 or 4 | |
433 ####################### | |
434 if ($draw) | |
435 { | |
436 $diagram_img->moveTo($previous_x_3or4,$previous_y_3or4); | |
437 } | |
438 $previous_x_3or4 = $margin_left + ($pos*$scale) - 1; | |
439 $diagram_img->fgcolor("green"); | |
440 $diagram_img->bgcolor("green"); | |
441 $previous_y_3or4 = $margin_top + (($section_size + $margin_between_section) * $num_chrom) + 1 - ($proportion_3or4 * 20) - 7; | |
442 if ($draw) | |
443 { | |
444 $diagram_img->lineTo($previous_x_3or4,$previous_y_3or4); | |
445 } | |
446 } | |
447 | |
448 } | |
449 | |
450 if ($type_analysis eq "polyploid_polyploid") | |
451 { | |
452 my $color = "gray"; | |
453 $pos = $pos / $global_scale; | |
454 | |
455 $diagram_img->fgcolor($color); | |
456 $diagram_img->bgcolor($color); | |
457 $diagram_img->rectangle( $margin_left + ($pos*$scale) - ($gene_width / 2), | |
458 $margin_top + (($section_size + $margin_between_section) * $num_chrom) + 1, | |
459 $margin_left + ($pos*$scale) + ($gene_width / 2), | |
460 $margin_top + $chrom_width + (($section_size + $margin_between_section) * $num_chrom) - 1 | |
461 ); | |
462 | |
463 | |
464 | |
465 my $proportion_equal = $proportions_categories{$gene}{"equal"}; | |
466 my $proportion_diff = $proportions_categories{$gene}{"difference"}; | |
467 | |
468 my $draw = 0; | |
469 if (defined $previous_x_equal) | |
470 { | |
471 $draw = 1; | |
472 } | |
473 | |
474 | |
475 ################################################## | |
476 # SNP category : equality between 2 polyploids | |
477 ################################################## | |
478 if ($draw) | |
479 { | |
480 $diagram_img->moveTo($previous_x_equal,$previous_y_equal); | |
481 } | |
482 $previous_x_equal = $margin_left + ($pos*$scale) - 1; | |
483 $diagram_img->setThickness(2); | |
484 $diagram_img->fgcolor("red"); | |
485 $diagram_img->bgcolor("red"); | |
486 $previous_y_equal = $margin_top + (($section_size + $margin_between_section) * $num_chrom) + 1 - ($proportion_equal * 20) - 7; | |
487 if ($draw) | |
488 { | |
489 $diagram_img->lineTo($previous_x_equal,$previous_y_equal); | |
490 } | |
491 } | |
492 | |
493 $nombre_genes++; | |
494 } | |
495 | |
496 $num_chrom++; | |
497 } | |
498 | |
499 if ($type_analysis eq "polyploid_polyploid") | |
500 { | |
501 $diagram_img->moveTo(5,$y_end); | |
502 $diagram_img->setThickness(2); | |
503 $diagram_img->fgcolor("red"); | |
504 $diagram_img->bgcolor("red"); | |
505 $diagram_img->lineTo(25,$y_end); | |
506 $diagram_img->fgcolor("black"); | |
507 $diagram_img->moveTo(30,$y_end + 5); | |
508 $diagram_img->fontsize(12); | |
509 $diagram_img->font('Times'); | |
510 $diagram_img->string("% SNP where P1 = P2"); | |
511 } | |
512 elsif ($type_analysis eq "polyploid_diploid") | |
513 { | |
514 if ($display_cat eq "yes") | |
515 { | |
516 $diagram_img->moveTo(5,$y_end); | |
517 $diagram_img->setThickness(2); | |
518 $diagram_img->fgcolor("orange"); | |
519 $diagram_img->bgcolor("orange"); | |
520 $diagram_img->lineTo(25,$y_end); | |
521 $diagram_img->fgcolor("black"); | |
522 $diagram_img->moveTo(30,$y_end + 5); | |
523 $diagram_img->fontsize(12); | |
524 $diagram_img->font('Times'); | |
525 $diagram_img->string("% SNP type 1"); | |
526 | |
527 $diagram_img->moveTo(5,$y_end + 20); | |
528 $diagram_img->setThickness(2); | |
529 $diagram_img->fgcolor("purple"); | |
530 $diagram_img->bgcolor("purple"); | |
531 $diagram_img->lineTo(25,$y_end + 20); | |
532 $diagram_img->fgcolor("black"); | |
533 $diagram_img->moveTo(30,$y_end + 25); | |
534 $diagram_img->fontsize(12); | |
535 $diagram_img->font('Times'); | |
536 $diagram_img->string("% SNP type 2"); | |
537 | |
538 $diagram_img->moveTo(5,$y_end + 40); | |
539 $diagram_img->setThickness(2); | |
540 $diagram_img->fgcolor("green"); | |
541 $diagram_img->bgcolor("green"); | |
542 $diagram_img->lineTo(25,$y_end + 40); | |
543 $diagram_img->fgcolor("black"); | |
544 $diagram_img->moveTo(30,$y_end + 45); | |
545 $diagram_img->fontsize(12); | |
546 $diagram_img->font('Times'); | |
547 $diagram_img->string("% SNP type 3 or 4"); | |
548 | |
549 $diagram_img->moveTo(5,$y_end + 60); | |
550 $diagram_img->setThickness(2); | |
551 $diagram_img->fgcolor("red"); | |
552 $diagram_img->bgcolor("red"); | |
553 $diagram_img->lineTo(25,$y_end + 60); | |
554 $diagram_img->fgcolor("black"); | |
555 $diagram_img->moveTo(30,$y_end + 65); | |
556 $diagram_img->fontsize(12); | |
557 $diagram_img->font('Times'); | |
558 $diagram_img->string("% SNP type 5"); | |
559 } | |
560 else | |
561 { | |
562 $diagram_img->moveTo(5,$y_end); | |
563 $diagram_img->setThickness(2); | |
564 $diagram_img->fgcolor("red"); | |
565 $diagram_img->bgcolor("red"); | |
566 $diagram_img->lineTo(25,$y_end); | |
567 $diagram_img->fgcolor("black"); | |
568 $diagram_img->moveTo(30,$y_end + 5); | |
569 $diagram_img->fontsize(12); | |
570 $diagram_img->font('Times'); | |
571 $diagram_img->string("% SNP Class 5 per gene (SNP Intra-Diploids = SNP Intra-Polyploid)"); | |
572 } | |
573 | |
574 $diagram_img->moveTo(5,$y_end + 30); | |
575 $diagram_img->fontsize(12); | |
576 $diagram_img->font('Times'); | |
577 $diagram_img->string("Estimate of subgenomic contribution to the transcriptome for each gene (%G2)"); | |
578 | |
579 | |
580 $diagram_img->moveTo(25,$y_end + 45); | |
581 $diagram_img->setThickness(10); | |
582 $diagram_img->fgcolor($red); | |
583 $diagram_img->bgcolor($red); | |
584 $diagram_img->lineTo(30,$y_end + 45); | |
585 $diagram_img->fgcolor("black"); | |
586 $diagram_img->moveTo(35,$y_end + 50); | |
587 $diagram_img->fontsize(12); | |
588 $diagram_img->font('Times'); | |
589 $diagram_img->string("0-30%"); | |
590 | |
591 $diagram_img->moveTo(95,$y_end + 45); | |
592 $diagram_img->setThickness(10); | |
593 $diagram_img->fgcolor($red_light); | |
594 $diagram_img->bgcolor($red_light); | |
595 $diagram_img->lineTo(100,$y_end + 45); | |
596 $diagram_img->fgcolor("black"); | |
597 $diagram_img->moveTo(105,$y_end + 50); | |
598 $diagram_img->fontsize(12); | |
599 $diagram_img->font('Times'); | |
600 $diagram_img->string("30-40%"); | |
601 | |
602 $diagram_img->moveTo(165,$y_end + 45); | |
603 $diagram_img->setThickness(10); | |
604 $diagram_img->fgcolor($orange); | |
605 $diagram_img->bgcolor($orange); | |
606 $diagram_img->lineTo(170,$y_end + 45); | |
607 $diagram_img->fgcolor("black"); | |
608 $diagram_img->moveTo(175,$y_end + 50); | |
609 $diagram_img->fontsize(12); | |
610 $diagram_img->font('Times'); | |
611 $diagram_img->string("40-60%"); | |
612 | |
613 $diagram_img->moveTo(235,$y_end + 45); | |
614 $diagram_img->setThickness(10); | |
615 $diagram_img->fgcolor($orange_light); | |
616 $diagram_img->bgcolor($orange_light); | |
617 $diagram_img->lineTo(240,$y_end + 45); | |
618 $diagram_img->fgcolor("black"); | |
619 $diagram_img->moveTo(245,$y_end + 50); | |
620 $diagram_img->fontsize(12); | |
621 $diagram_img->font('Times'); | |
622 $diagram_img->string("60-70%"); | |
623 | |
624 $diagram_img->moveTo(305,$y_end + 45); | |
625 $diagram_img->setThickness(10); | |
626 $diagram_img->fgcolor($yellow); | |
627 $diagram_img->bgcolor($yellow); | |
628 $diagram_img->lineTo(310,$y_end + 45); | |
629 $diagram_img->fgcolor("black"); | |
630 $diagram_img->moveTo(315,$y_end + 50); | |
631 $diagram_img->fontsize(12); | |
632 $diagram_img->font('Times'); | |
633 $diagram_img->string("70-100%"); | |
634 | |
635 $diagram_img->moveTo(25,$y_end + 60); | |
636 $diagram_img->setThickness(10); | |
637 $diagram_img->fgcolor("gray"); | |
638 $diagram_img->bgcolor("gray"); | |
639 $diagram_img->lineTo(30,$y_end + 60); | |
640 $diagram_img->fgcolor("black"); | |
641 $diagram_img->moveTo(35,$y_end + 65); | |
642 $diagram_img->fontsize(12); | |
643 $diagram_img->font('Times'); | |
644 $diagram_img->string("No ratio information, no SNP class 5 in this gene"); | |
645 | |
646 } | |
647 | |
648 | |
649 open( DIAGRAM_PICT, ">$output_png" ); | |
650 binmode(DIAGRAM_PICT); | |
651 print DIAGRAM_PICT $diagram_img->png; | |
652 close DIAGRAM_PICT; |