+-- RNA_seq_KC_diff #working directory)
    +-- fastq
    |  	+-- fastqfile_R1.fastq.gz
    |	+-- fastqfile_R2.fastq.gz
    |	+-- etc.
    |
    +-- CRCh38_fasta
    |    +-- downloaded genome files
    |
    +-- CRCh38
    |    +-- all indexed genome files after generate genome step.
    |
    +-- scripts
    |    +-- CRCH38_ensembl2UCSC.txt
    |    +-- convertBigWigChroms.py
    |
    +-- mapping
    	+-- bam
      	|   +-- output_bam_files after STAR
    	+-- wiggle
      	|   +-- output_wiggle_files after STAR
    	+-- counts
       	    +-- output gene counts after STAR