Page updated by Jelena Telenius - 17:00 28/Nov/2018

CCseqBasic

~ Run instructions


Pipeline run instructions

updated by Jelena - 15:00 10/Jan/2017


This page divides further to :
  1. Generate capturesite (RE fragment) coordinate file
  2. Generate the list of genomic regions homologous to your capture RE fragments
  3. List your input FASTQ files
  4. Run the pipeline

  5. Vignette for test run with test dataset (complete with browseable output files)

  6. Run the pipeline in --snp mode (investigating allelic skew)
  7. Re-using RE-cut genomes (to avoid using time in generating one on the fly during the run)