TRON-Bioinformatics/covigator-ngs-pipeline Issues
Mamba support
ClosedPangolin only mode
ClosedSupport for conda
ClosedONT sequencing data
Updated 2Improvement in Variant calling
Closed 5ARTIC primer masking
Closed 9
A Nextflow pipeline for NGS variant calling on SARS-CoV-2. From FASTQ files to normalized and annotated VCF files from GATK, BCFtools, LoFreq and iVar.