Trout-Pool3.2 Bioinformatics

Demultiplexing

Split into 100000 line files

mkdir /gscratch/grandol1/trout1_2
cd /gscratch/grandol1/trout1_2
cat /project/microbiome/data_queue/seq/trout1_2/rawreads/TroutPool3-2_S1_L001_R1_001.fastq | split -l 1000000 -d --suffix-length=3 --additional-suffix=.fastq - Trout1_Pool3-2_

Parse split files

/project/microbiome/data_queue/seq/trout1_2/demultiplex/run_parsebarcodes_onSplitInput.pl

Recombine by sample name and mid

cd /project/microbiome/data_queue/seq/trout1_2/demultiplex

./run_splitFastq_gbs.sh

Genome Technologies Laboratory

Trout-Pool3.2 Bioinformatics

Analytics

Demultiplexing

Related content