Python Source Code

Information about each script

• Generate_Seq.py: generates simulated DNA sequences with domains of homogeneous GC Content. Simulated Sequences can either have equal-length domains or variable-length domains.
• Testing_Library.py:
• ViewGC.py: Shows a graph of window-based GC content using the FASTA sequence and JSON sequence data files inputted.
• score_eqlengths.py: Compiles data for correlational analysis between ground truth domain length for EQUAL-LENGTH SEQUENCES and average predicted length by both isoPlotter and isoSegmenter.
• score_varlengths.py:Compiles data for correlational analysis between ground truth number of domains for VARIABLE-LENGTH SEQUENCES and average predictions by both isoPlotter and isoSegmenter.
• score_isoplotter.py: Scores all predictions made by isoPlotter (equal length and variable length) and outputs summary data
• score_isosegmenter.py: Scores all predictions made by isoSegmenter (equal length and variable length) and outputs summary data

Python Package Requirements

• biopython (version 1.78)
• numpy (version 1.20.2)
• matplotlib (version 3.4.1)