MeTAline: a snakemake pipeline for the study of metagenomes

MeTAline, is a snakemake pipeline for metagenomics analysis. MeTAline, facilitates an efficient workflow to preprocess short reads metagenomics data: from read trimming and filtering, through host read subtraction to taxonomic classification using both k-mer and gene marker-based approaches, and functional profiling of the samples.

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Table of Wiki content

About

Quick Start & Try Out

You can watch a small tutorial here:

tutorial_meTAline_with_voice.mp4

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meTAline with Singularity

Build Singularity image

Run with Singularity

meTAline with Docker

Build Docker image

Run with Docker

meTAline with HPC

Running in HPC environment

parallelize meTAline

In HPC cluster

On local machine

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Available target rules

Benchmark outputs

Reporting meTAline

Debugging meTAline

Citations / Acknowledgments

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