v2.2.0

Version 2 of VAIW includes:

• Rewrite of the script to be more generic for different references
• Ability to analyze user provided references (fasta, gff) and amplicons (primer bed file)
• Use named arguments instead of positional arguments
• Added many arguments for more fine-tuned analysis
• Performed a major update to align_trim to better find primer ends
• More detailed logging
• More robust: it would randomly fail when running bbtools when it failed to allocate memory

v1.3.0

Original release for just SARS-CoV-2 analysis.