References and external links

This pipeline uses several tools and external ressources. Documentation for these can be found at the links below:

Tool	Link
BLAST	https://blast.ncbi.nlm.nih.gov/Blast.cgi
Conda	https://docs.conda.io/en/latest/
Cutadapt	https://cutadapt.readthedocs.io/en/stable/
create_sampleSheet	https://gitlab.com/bfr_bioinformatics/AQUAMIS
DADA2	https://benjjneb.github.io/dada2/
DT	https://rstudio.github.io/DT/
fastp	https://github.com/OpenGene/fastp
Krona	https://bio.tools/krona
Pandas	https://pandas.pydata.org/
RMarkdown	https://rmarkdown.rstudio.com/
SeqTK	https://github.com/lh3/seqtk
Snakemake	https://snakemake.readthedocs.io/en/stable/
scikit-learn	https://scikit-learn.org/stable/
taxidTools	https://cvua-rrw.github.io/taxidTools/
Tidyverse	https://www.tidyverse.org/
VSEARCH	https://github.com/torognes/vsearch