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 "
cp /corral-repl/utexas/BioITeam/core_ngs_tools/human_stuff*/*rnaseq* ..fastq.gz ./raw_data/
Do you believe that I gave you files of any reasonable quality? I wouldn't, so you should check it out.
cds; cd raw_data
module load fastqc
BWA - Yeast ChIP-seq
Bowtie2 and Local Alignment - Human microRNA-seq