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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Amplicon_dada2_MiSeq/.snakemake
Amplicon_dada2_MiSeq/.snakemake/*
Amplicon_dada2_MiSeq/tests/
Amplicon_dada2_MiSeq/tests/*.txt
Amplicon_dada2_MiSeq/ref/
Amplicon_dada2_MiSeq/ref/*
metaG_Illumina_PE/.snakemake
metaG_Illumina_PE/.snakemake/*
metaG_Illumina_PE/slurm*
metaG_Illumina_PE/*.sh
metaG_Illumina_PE/*.done
!images
!images/*
!Amplicon_dada2_MiSeq/scripts
!Amplicon_dada2_MiSeq/scripts/*
!Amplicon_dada2_MiSeq/Snakefile*
!Amplicon_dada2_MiSeq/config
!Amplicon_dada2_MiSeq/config/*
!Amplicon_dada2_MiSeq/envs
!Amplicon_dada2_MiSeq/envs/*
!LICENSE
!README.md
!Amplicon_dada2_MiSeq/rules
!Amplicon_dada2_MiSeq/rules/*
!Amplicon_dada2_MiSeq/example_output
!Amplicon_dada2_MiSeq/example_output/*
!.gitignore
!.gitattributes
!.editorconfig