Wednesday, March 23, 2011

Quality trimming fastq files using CLC Bio cell

  1. copy the mandatory license.properties file to your working directory
  2. /usr/local/packages/clc-ngs-cell/quality_trim -o -p -c -l -m -r -i &
  3. Optional: Split the resulting interleaved paired file into two components:
    ~/workspace/meta_scripts/splitMatedFastq.pl

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