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DNA Metabarcoding analyse on RAPIDRUN data with OBITOOLS encapsulated in SNAKEMAKE

OTU clustering with SWARM on RAPIDRUN data encapsulated in SNAKEMAKE

Comparison of multiple bioinformatic programs for each step of eDNA analysis

Here we go again to investigate genetic diversity patterns at different scale

This repository is an adaptation of the poolDiffCNV repo. (https://github.com/andrewkern/poolDiffCNV).

This workflow will use a pseudo aligner (Kallisto or Salmon) to quantify transcript abundance and test for differential expression.

From https://github.com/davidemms/OrthoFinder

number of SNPs, distance between consecutive loci (in bp) and number of SNPs located on a coding region for each species