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Commit b1498227 authored by Sander Bollen's avatar Sander Bollen
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Stage: sanity
Stage: dry-run
Stage: integration
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README.md
+ 102
− 72
View file @ b1498227
......@@ -271,78 +271,108 @@ digraph snakemake_dag {
rankdir=LR;
node[shape=box, style=rounded, fontname=sans, fontsize=10, penwidth=2];
edge[penwidth=2, color=grey];
0[label = "all", color = "0.32 0.6 0.85", style="rounded"];
1[label = "fastqc_postqc", color = "0.48 0.6 0.85", style="rounded"];
2[label = "fastqc_raw", color = "0.05 0.6 0.85", style="rounded"];
3[label = "fastqc_merged", color = "0.57 0.6 0.85", style="rounded"];
4[label = "merge_stats", color = "0.21 0.6 0.85", style="rounded"];
5[label = "genotype_gather", color = "0.37 0.6 0.85", style="rounded"];
6[label = "cutadapt", color = "0.30 0.6 0.85", style="rounded"];
7[label = "merge_r2", color = "0.60 0.6 0.85", style="rounded"];
8[label = "merge_r1", color = "0.23 0.6 0.85", style="rounded"];
9[label = "collectstats", color = "0.02 0.6 0.85", style="rounded"];
10[label = "vcfstats", color = "0.07 0.6 0.85", style="rounded"];
11[label = "genotype_scatter", color = "0.16 0.6 0.85", style="rounded"];
12[label = "sickle", color = "0.46 0.6 0.85", style="rounded"];
13[label = "mapped_num", color = "0.64 0.6 0.85", style="rounded"];
14[label = "fqcount_postqc", color = "0.00 0.6 0.85", style="rounded"];
15[label = "unique_num", color = "0.11 0.6 0.85", style="rounded"];
16[label = "covstats", color = "0.41 0.6 0.85", style="rounded"];
17[label = "fqcount_preqc", color = "0.62 0.6 0.85", style="rounded"];
18[label = "usable_basenum", color = "0.14 0.6 0.85", style="rounded"];
19[label = "mapped_basenum", color = "0.09 0.6 0.85", style="rounded"];
20[label = "gvcf_gather", color = "0.55 0.6 0.85", style="rounded"];
21[label = "seqtk_r2", color = "0.51 0.6 0.85", style="rounded"];
22[label = "seqtk_r1", color = "0.28 0.6 0.85", style="rounded"];
23[label = "align", color = "0.25 0.6 0.85", style="rounded"];
24[label = "markdup", color = "0.18 0.6 0.85", style="rounded"];
25[label = "genome", color = "0.53 0.6 0.85", style="rounded"];
26[label = "gvcf_scatter", color = "0.34 0.6 0.85", style="rounded"];
27[label = "printreads", color = "0.39 0.6 0.85", style="rounded"];
28[label = "baserecal", color = "0.44 0.6 0.85", style="rounded"];
4 -> 0
2 -> 0
1 -> 0
5 -> 0 [color="red"]
0[label = "all", color = "0.62 0.6 0.85", style="rounded"];
1[label = "genotype_gather", color = "0.31 0.6 0.85", style="rounded"];
2[label = "multiqc", color = "0.14 0.6 0.85", style="rounded"];
3[label = "bai", color = "0.41 0.6 0.85", style="rounded"];
4[label = "split_vcf", color = "0.53 0.6 0.85", style="rounded"];
5[label = "fastqc_raw", color = "0.63 0.6 0.85", style="rounded"];
6[label = "fastqc_merged", color = "0.24 0.6 0.85", style="rounded"];
7[label = "fastqc_postqc", color = "0.26 0.6 0.85", style="rounded"];
8[label = "vtools_coverage", color = "0.58 0.6 0.85", style="rounded"];
9[label = "merge_stats", color = "0.36 0.6 0.85", style="rounded"];
10[label = "genotype_scatter", color = "0.09 0.6 0.85", style="rounded"];
11[label = "genotype_chunkfile", color = "0.29 0.6 0.85", style="rounded"];
12[label = "stats_tsv", color = "0.51 0.6 0.85", style="rounded"];
13[label = "markdup", color = "0.55 0.6 0.85", style="rounded"];
14[label = "genotype_gather_tbi", color = "0.19 0.6 0.85", style="rounded"];
15[label = "merge_r1", color = "0.60 0.6 0.85", style="rounded"];
16[label = "merge_r2", color = "0.10 0.6 0.85", style="rounded"];
17[label = "cutadapt", color = "0.17 0.6 0.85", style="rounded"];
18[label = "gvcf_gather", color = "0.32 0.6 0.85", style="rounded"];
19[label = "gvcf_gather_tbi", color = "0.27 0.6 0.85", style="rounded"];
20[label = "collectstats", color = "0.03 0.6 0.85", style="rounded"];
21[label = "vcfstats", color = "0.00 0.6 0.85", style="rounded"];
22[label = "align", color = "0.05 0.6 0.85", style="rounded"];
23[label = "create_markdup_tmp", color = "0.44 0.6 0.85", style="rounded"];
24[label = "sickle", color = "0.39 0.6 0.85", style="rounded"];
25[label = "gvcf_scatter", color = "0.02 0.6 0.85", style="rounded"];
26[label = "gvcf_chunkfile", color = "0.56 0.6 0.85", style="rounded"];
27[label = "fqcount_preqc", color = "0.38 0.6 0.85", style="rounded"];
28[label = "fqcount_postqc", color = "0.12 0.6 0.85", style="rounded"];
29[label = "mapped_num", color = "0.50 0.6 0.85", style="rounded"];
30[label = "mapped_basenum", color = "0.43 0.6 0.85", style="rounded"];
31[label = "unique_num", color = "0.65 0.6 0.85", style="rounded"];
32[label = "usable_basenum", color = "0.22 0.6 0.85", style="rounded"];
33[label = "fastqc_stats", color = "0.46 0.6 0.85", style="rounded"];
34[label = "covstats", color = "0.07 0.6 0.85", style="rounded"];
35[label = "seqtk_r1", color = "0.34 0.6 0.85", style="rounded"];
36[label = "seqtk_r2", color = "0.21 0.6 0.85", style="rounded"];
37[label = "baserecal", color = "0.48 0.6 0.85", style="rounded"];
38[label = "genome", color = "0.15 0.6 0.85", style="rounded"];
9 -> 0
4 -> 0 [color = "red"]
3 -> 0
6 -> 1
8 -> 3
7 -> 3
10 -> 4
9 -> 4
11 -> 5 [color="red"]
12 -> 6 [color="red"]
14 -> 9
19 -> 9
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17 -> 9
13 -> 9
5 -> 10
20 -> 11 [color="red"]
22 -> 12 [color="red"]
21 -> 12 [color="red"]
23 -> 13
6 -> 14
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8 -> 17 [color="red"]
7 -> 17 [color="red"]
24 -> 18
23 -> 19
26 -> 20 [color="red"]
17 -> 21 [color="red"]
7 -> 21 [color="red"]
6 -> 0
7 -> 0
1 -> 0
8 -> 0
2 -> 0
5 -> 0
11 -> 1 [color = "red"]
10 -> 1 [color = "red"]
12 -> 2
13 -> 3
1 -> 4 [color = "red"]
14 -> 4 [color = "red"]
16 -> 6
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21 -> 9
19 -> 10 [color = "red"]
18 -> 10 [color = "red"]
9 -> 12
23 -> 13 [color = "red"]
22 -> 13 [color = "red"]
1 -> 14 [color = "red"]
24 -> 17 [color = "red"]
25 -> 18 [color = "red"]
26 -> 18 [color = "red"]
18 -> 19 [color = "red"]
28 -> 20
27 -> 20
32 -> 20
30 -> 20
33 -> 20
34 -> 20
29 -> 20
31 -> 20
1 -> 21
14 -> 21
17 -> 22 [color = "red"]
8 -> 22 [color="red"]
6 -> 23 [color="red"]
23 -> 24 [color="red"]
27 -> 26 [color="red"]
24 -> 27 [color="red"]
28 -> 27 [color="red"]
24 -> 28 [color="red"]
36 -> 24 [color = "red"]
35 -> 24 [color = "red"]
37 -> 25 [color = "red"]
13 -> 25 [color = "red"]
16 -> 27 [color = "red"]
15 -> 27 [color = "red"]
17 -> 28
22 -> 29
22 -> 30
13 -> 31
13 -> 32
7 -> 33
6 -> 33
38 -> 34
13 -> 34
27 -> 35 [color = "red"]
15 -> 35 [color = "red"]
27 -> 36 [color = "red"]
16 -> 36 [color = "red"]
13 -> 37 [color = "red"]
}
```
......
img/rulegraph.svg
+ 425
− 275
View file @ b1498227
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