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2 changes: 1 addition & 1 deletion README.md
Original file line number Diff line number Diff line change
Expand Up @@ -227,7 +227,7 @@ params.freyja = true # multiple SARS-CoV-2 lineage determin
params.vadr = false # NCBI fasta QC
params.relatedness = false # create multiple sequence alignments with input fastq and fasta files
params.snpdists = true # creates snp matrix from mafft multiple sequence alignment
params.iqtree = true # creates phylogenetic tree from mafft multiple sequence alignement
params.iqtree = true # creates phylogenetic tree from mafft multiple sequence alignment
params.bamsnap = false # has been removed
params.rename = false # needs a corresponding sample file and will rename files for GISAID and NCBI submission
params.filter = false # takes the aligned reads and turns them back into fastq.gz files
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