Convert WGS fastq files to VCF
What is, currently, the best pipeline to convert the two fastq files of an Illumina WGS to a VCF files?
I see there is the GATK pipeline, powered by Terra.bio, but I understand will start from BAM file...
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Pierre Lindenbaum
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nankos77 •
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nankos77 •
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Sarek : https://github.com/nf-core/sarek
Analysis pipeline to detect germline or somatic variants (pre-processing, variant calling and annotation) from WGS / targeted sequencing
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