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DNAseq

Sentieon DNAseq basic pipeline

Authors: Massimiliano Volpe, Jyotirmoy Das
Email: [email protected], [email protected]
Date: 11/02/2021

Developed on behalf of the Bioinformatics Core Facility, Linköping University

Rules:

  • Raw data should be stored in the same folder
  • Paths to raw data and reference must be set in the config.json file
  • Fastq filename suffix must be set in the config.json file, e.g.:
    /path_to_fastq/FR1_S16_L001_R1_001.fastq.gz --> "_L001_R1_001.fastq.gz"
    /path_to_fastq/FR1_S16_L001_R2_001.fastq.gz --> "_L001_R2_001.fastq.gz"

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