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Computaional workflows for metagenomics tasks, by the Bhatt lab

Home Page: http://www.bhattlab.com

Python 75.30% R 23.15% Shell 1.55%

bhattlab_workflows's Introduction

Bhattlab workflows

Computational workflows for metagenomics tasks, packaged with Snakemake and singularity

Table of contents

  1. Setup
  2. Running a workflow
  3. Available workflows

Quickstart

snakemake --configfile config_preprocessing.yaml \
--snakefile ~/projects/bhattlab_workflows/preprocessing/preprocessing.snakefile \
--profile scg --jobs 100 --use-singularity \
--singularity-args '--bind /labs/,/oak/,/home/'

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Contributors

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