Commit 48b5111b authored by Jacques Lagnel's avatar Jacques Lagnel
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update README

parent b1009c53
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# WGS SNPs calling pipeline for Paired-end Illumina sequencing
## From raw fastq data to vcf file.
## Pipeline features:
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https://gatk.broadinstitute.org/hc/en-us/articles/360035890471-Hard-filtering-germline-short-variants
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**Warning**
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!! For the reference fasta file, he reference definition line must not contain space or special character.
For the reference fasta file, he reference definition line must not contain space or special character.
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## Snakemake features: fastq from csv file, config, modules, SLURM
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