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Now we need to set up the raw data for processing. Stage these files on Stampede from Corral in the fewest possible commands .in a directly called "
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cds
mkdir raw_data
cp /corral-repl/utexas/BioITeam/core_ngs_tools/human_stuff*/*rnaseq* ..fastq.gz ./raw_data/
cd raw_data/ |
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Do you believe that I gave you files of any reasonable quality? I wouldn't, so you should check it out.
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cds; cd raw_data
module load fastqc
fastqc human_rnaseq.fastq.gz
fastqc human_mirnaseq.fastq.gz |
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BWA - Yeast ChIP-seq
Bowtie2 and Local Alignment - Human microRNA-seq
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