A tool to create a Gemini-compatible DB file from an annotated VCF
meta{:bash}
:map
Groovy Map containing sample information e.g. [ id:‘test’, single_end:false ]
vcf{:bash}
:file
VCF file
*.vcf.gz
ped{:bash}
PED file
*.ped
db{:bash}
*.db{:bash}
Gemini-compatible database file
*.db
versions_vcf2db{:bash}
${task.process}{:bash}
:string
The name of the process
vcf2db{:bash}
The name of the tool
2020.02.24{:bash}
The expression to obtain the version of the tool
versions_python_snappy{:bash}
python-snappy{:bash}
0.5.4{:bash}
versions_snappy{:bash}
snappy{:bash}
1.1.8{:bash}
versions_cyvcf2{:bash}
cyvcf2{:bash}
python -c 'import cyvcf2; print(cyvcf2.__version__)'{:bash}
:eval
versions_python{:bash}
python{:bash}
python --version 2>&1 | awk '{print \$2}'{:bash}
versions{:bash}
Create a gemini-compatible database from a VCF
