Ion Torrent BAM and FASTQ

Ion Torrent BAM and FASTQ

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Hi all,

Im new to the ION Torrent technology and need your help to figure this out. The Ion GeneStudio™ S5 System generates BAM files as its primary output. when i need a particular FASTQ file, i can use the FileExporter plugin and get the relevant FASTQ file.
My questions are

  1. Does the system generates a FASTQ file when generating the BAM file from WELLS file? (Illumina produce the FASTQ file as the raw data and we aligned them later)
  2. is the generated BAM file used by FileExpoter plugin to generate the FASTQ ?
  3. Can anyone explain the process between the WELLS file>BAM file?

Thanks a lot.


NGS


TorrentBaseCaller


FASTQ


BAM


IonExporter

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