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sinamajidian/run_metabuli.MD

Last active July 20, 2025 20:43
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How we ran metabuli for the Movi color study
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run_metabuli.MD

In our Movi color study, we ran metabuli using the following script. We used two read datasets from CAMI (long and short read) for metagenomic classification.

Install

conda create -n metab python=3.12
conda activate metab

wget https://mmseqs.com/metabuli/metabuli-linux-avx2.tar.gz

Build

metabuli/bin/metabuli  build metabuli_db fasta.list accession2taxid --taxonomy-path .

The file fasta.list includes 75166 fasta files (e.g. NC_000913.3.fa, NC_000914.2.fa, ).

classify

metabuli classify --seq-mode $mode cami_plant/reads/anonymous_reads_0.fq metabuli_db outdir_reads0_1thread jobid  --threads 1

mode is set to 1 for short read and 3 for long read.

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