renamed old python folder
helper scripts for creating coverage stats

used by run_coverage_boxplot
helper scripts for preprocessing pipeline

used by start_preprocess_pipeline
reducereads wrapper

unsure how much computational time this saves. not used yet.
old R script for coverage_stat
new R Script for creating coverage boxplots

used for QC of coverage
new python scripts for preprocessing pipeline
old python helper files
update DB

python script for updating mysql with location of vcf, bam, and qc files