alignment/convert_reads.py

alignment/map_qc.py

alignment/map_reads.py

call_peaks/call_peaks_macs.py

call_peaks/overlap_peaks.py

call_peaks/pool_and_psuedoreplicate.py

cross_correlation/xcor.py

design_file/check_design.py

design_file/experiment_design.py

preproc_fastq/trim_reads.py

python_utils/utils.py

quality_metrics/experiment_qc.py

quality_metrics/xcor.py