January 2021

Many small fixes:

• FastQC output is now temp
• clean-up of in-silico code
• added compatibility with single-end reads
• start to work on documentation
• cutadapt is now used to extract amplicon regions in ref database preprocessing
• fixed missing font for DADA2 graphs
• logs are simplified (tool logs are not recorded in dates directories anymore. Only execution logs are).
• ...
  Next steps:
• continue doc
• complete R shiny to QC results