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Status (9 February 2021)

Demultiplexing and splitting

  1. The raw sequence data are in /project/microbiome/data/seq/gtl_tests/iSeq100Pilot1_brew_30nov20/rawdata.

  2. I uncompressed the forward and reverse read files with unpigz on an interactive node (could also used single-threaded gunzip).

  3. I fixed the line-endings (from MS DOS line-endings) in the Brew_20_DEMUX.csv with dos2unix Brew_20_DEMUX.csv

  4. I ran sbatch run_slurm_parse_count.sh after editing run_slurm_parse_count.sh to have the correct filenames and string for the sequencer id.

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