mirror of
https://github.com/MillironX/nf-core_modules.git
synced 2024-11-11 04:33:10 +00:00
18 lines
788 B
Text
18 lines
788 B
Text
|
#!/usr/bin/env nextflow
|
||
|
|
|
||
|
|
nextflow.enable.dsl = 2
|
||
|
|
|
||
|
|
include { EXPANSIONHUNTER } from '../../../modules/expansionhunter/main.nf' addParams( options: [:] )
|
||
|
|
|
||
|
|
workflow test_expansionhunter {
|
||
|
|
|
||
|
|
input = [ [ id:'test', gender:'male' ], // meta map
|
||
|
|
file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam'], checkIfExists: true),
|
||
|
|
file(params.test_data['homo_sapiens']['illumina']['test_paired_end_recalibrated_sorted_bam_bai'], checkIfExists: true),
|
||
|
|
]
|
||
|
|
fasta = file(params.test_data['homo_sapiens']['genome']['genome_fasta'], checkIfExists: true)
|
||
|
|
variant_catalog = file(params.test_data['homo_sapiens']['genome']['repeat_expansions'], checkIfExists: true)
|
||
|
|
|
||
|
|
EXPANSIONHUNTER ( input, fasta, variant_catalog )
|
||
|
|
}
|