forked from nf-core/sarek
-
Notifications
You must be signed in to change notification settings - Fork 2
/
meta.yml
71 lines (71 loc) · 1.94 KB
/
meta.yml
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
name: sentieon_gvcftyper
description: |
Perform joint genotyping on one or more samples pre-called with Sentieon's Haplotyper.
keywords:
- joint genotyping
- genotype
- gvcf
tools:
- sentieon:
description: |
Sentieon® provides complete solutions for secondary DNA/RNA analysis for a variety of sequencing platforms, including short and long reads.
Our software improves upon BWA, STAR, Minimap2, GATK, HaplotypeCaller, Mutect, and Mutect2 based pipelines and is deployable on any generic-CPU-based computing system.
homepage: https://www.sentieon.com/
documentation: https://www.sentieon.com/
input:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- gvcfs:
type: file
description: |
gVCF(.gz) file
pattern: "*.{vcf,vcf.gz}"
- tbis:
type: file
description: |
index of gvcf file
pattern: "*.tbi"
- intervals:
type: file
description: Interval file with the genomic regions included in the library (optional)
- fasta:
type: file
description: Reference fasta file
pattern: "*.fasta"
- fai:
type: file
description: Reference fasta index file
pattern: "*.fai"
- dbsnp:
type: file
description: dbSNP VCF file
pattern: "*.vcf.gz"
- dbsnp_tbi:
type: file
description: dbSNP VCF index file
pattern: "*.tbi"
output:
- meta:
type: map
description: |
Groovy Map containing sample information
e.g. [ id:'test', single_end:false ]
- vcf:
type: file
description: Genotyped VCF file
pattern: "*.vcf.gz"
- tbi:
type: file
description: Tbi index for VCF file
pattern: "*.vcf.gz"
- versions:
type: file
description: File containing software versions
pattern: "versions.yml"
authors:
- "@asp8200"
maintainers:
- "@asp8200"