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FEA: reverse kmer location, FLAG and QUAL filter in mapping and fasta instead...

julie.orjuela_ird.fr requested to merge 12-kmer_localisation into master

FEA: reverse kmer location, FLAG and QUAL filter in mapping and fasta instead of fastq kmer sequence

  • location of reversed kmers after mapping was corrected
  • adding FLAG and QUAL features in config file to filter mapped kmers
  • fasta instead of fastq kmers sequences before mapping, fixing snakemake_scripts/kmer-bed2fasta.py
  • new rule was added to merge bams files with samtools merge

Closes #12 (closed)

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