Bcl2fastq2

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Description

The Illumina sequencing instruments generate per-cycle base call (BCL) files at the end of the sequencing run. A majority of analysis applications use per-read FASTQ files as input for analysis. You can use the bcl2fastq2 Conversion Software to convert basecall (BCL) files from a sequencing run into FASTQ files.

The bcl2fastq2 Conversion Software supports the following instruments:

  • MiniSeq
  • MiSeq
  • NextSeq 500, 550
  • HiSeq X
  • HiSeq 2000, 2500, 3000, 4000

Availability

Version 2.20

Use

module add bcl2fastq2-2.2.0
bcl2fastq -h

Documentation

http://jp.support.illumina.com/content/dam/illumina-support/documents/downloads/software/bcl2fastq/bcl2fastq2-v2-18-software-guide-15051736-01.pdf

Licence

This Software is licensed for use under an End User Software License Agreement

Program manager

meta@cesnet.cz

Homepage

https://support.illumina.com/sequencing/sequencing_software/bcl2fastq-conversion-software.html