This repository contains a collection of scripts and workflows that may be used as templates for amplicon and shotgun sequence data analysis.

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workflow_templates/Amplicon_dada2_MiSeq

History

Christiane Hassenrueck d5ff248424 updated citation for amplicon workflow		3 days ago
..
assets	started preparing snakemake workflow for amplicon dada2 miseq	1 year ago
config	adapted amplicon workflow for directed and mixed orientation libraries	4 months ago
envs	added rescue unmerged option to amplicon workflow, testing	5 months ago
images	updated amplicon workflow schematic	4 months ago
scripts	bug fix amplicon wf in parsing blast output with only 1 qseqid	3 weeks ago
CITATION.cff	updated citation for amplicon workflow	3 days ago
LICENSE	added license and citation files, major update to taxonomy parsing in amplicon workflow	7 months ago
Snakefile_classification	cleaning of comments in amplicon classification rules	3 months ago
Snakefile_denoising	adapted amplicon workflow for directed and mixed orientation libraries	4 months ago
Snakefile_trimming	bug fix trimming amplicon mixed orientation	3 months ago