Python code examples

• csv2fasta.py and fastq2fasta.py are small scripts that I often use in my work, they are format converters.
• bp_search_part1.py is a part of my current project to find chromosome rearrangements using NGS datasets sequenced with the Oxford Nanopore platform. This program is parallelized because the size of the input data is quite large (41 GB). This part of code convert alignment from SAM format into ZW format, select only alignments which satisfies the boundary conditions and min read length, classify alignments into L and R, filter by quality. The output data is processed by another code part, I do not provide the full project code, since it has not been published yet.
• bp_search_part5.py also a part of chromosome rearrangements search project