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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Christiane Hassenrueck accfb4ab18 modified counting sequences in raw data to accept bz2 and gz compressed input; bug fix in denoising script 3 months ago
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assets started preparing snakemake workflow for amplicon dada2 miseq 2 years ago
config included option in amplicon wf to combine denoised data with previously analyzed data set 3 months ago
envs added rescue unmerged option to amplicon workflow, testing 9 months ago
images updated amplicon workflow schematic 9 months ago
scripts modified counting sequences in raw data to accept bz2 and gz compressed input; bug fix in denoising script 3 months ago
CITATION.cff updated citation for amplicon workflow 4 months ago
LICENSE added license and citation files, major update to taxonomy parsing in amplicon workflow 11 months ago
Snakefile_classification cleaning of comments in amplicon classification rules 8 months ago
Snakefile_denoising included option in amplicon wf to combine denoised data with previously analyzed data set 3 months ago
Snakefile_trimming modified counting sequences in raw data to accept bz2 and gz compressed input; bug fix in denoising script 3 months ago