From f84bc302a1b22e6b4654714f280b31ef7b0bf3b6 Mon Sep 17 00:00:00 2001 From: Harshil Patel Date: Fri, 24 Mar 2023 10:40:53 +0000 Subject: [PATCH] Add ARTIC v5.3.2 primers x-ref: https://github.com/nf-core/viralrecon/issues/373 --- conf/pipeline/viralrecon/genomes.config | 8 +++++++- 1 file changed, 7 insertions(+), 1 deletion(-) diff --git a/conf/pipeline/viralrecon/genomes.config b/conf/pipeline/viralrecon/genomes.config index bcb5d5420..72e907c54 100644 --- a/conf/pipeline/viralrecon/genomes.config +++ b/conf/pipeline/viralrecon/genomes.config @@ -60,7 +60,13 @@ params { gff = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/GCA_009858895.3_ASM985889v3_genomic.200409.gff.gz' primer_bed = 'https://github.com/artic-network/artic-ncov2019/raw/master/primer_schemes/nCoV-2019/V4.1/SARS-CoV-2.scheme.bed' scheme = 'SARS-CoV-2' - } + } + '5.3.2' { + fasta = 'https://github.com/artic-network/artic-ncov2019/raw/master/primer_schemes/nCoV-2019/V5.3.2/SARS-CoV-2.reference.fasta' + gff = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/GCA_009858895.3_ASM985889v3_genomic.200409.gff.gz' + primer_bed = 'https://github.com/artic-network/artic-ncov2019/raw/master/primer_schemes/nCoV-2019/V5.3.2/SARS-CoV-2.scheme.bed' + scheme = 'SARS-CoV-2' + } '1200' { fasta = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/primer_schemes/artic/nCoV-2019/V1200/nCoV-2019.reference.fasta' gff = 'https://github.com/nf-core/test-datasets/raw/viralrecon/genome/MN908947.3/GCA_009858895.3_ASM985889v3_genomic.200409.gff.gz'