Commit 4e770f64 authored by jplantad's avatar jplantad
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Merge branch 'master' of...

Merge branch 'master' of http://gitbio.ens-lyon.fr/jplantad/ciri2021-get-consensus-sequences-from-vcf
parents cc649762 38ff7ebd
# CIRI2021 - Get consensus sequences from VCF
This project contains scripts for creating a consensus sequence per species
1) compress_vcf_to_gz.sh > compress VCF file with .gz format
2) generate_index.sh > build the index of the .gz files
3) get_consensus_sequence_bygene.sh > generate two sequences per individual from the VCF file
4) merge_fastafiles.sh > merge the individuals sequences and create one fasta file per gene
5) align_with_mafft.sh > concatenate the fasta sequences with humain coding sequence domain (CDS) and align using mafft
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