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lh3 committed Mar 31, 2024
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Minipileup is a simple pileup-based variant caller. It takes a reference FASTA
and one or multiple alignment BAM, and outputs a multi-sample VCF with
candidate variants along with allele counts:
and one or multiple alignment BAM, and outputs a multi-sample VCF along with
allele counts:
```sh
minipileup -yf ref.fa aln1.bam aln2.bam > var.vcf
```
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